HicRenderer config

[yumisims]

Hi,
Anyone has an example of HicRenderer config, I would like to know how does it work using jbrowse cli. Thank you

[cmdcolin]

Is there anything in particular about the HicRenderer that you want to customize? the HicRenderer config options are baseColor (which by default is red) and color (which adds alpha transparency to the baseColor depending on the score)

[cmdcolin]

here is an example of a hic track with a blue color scheme

{
  type: 'HicTrack',
  trackId: 'hic-1652980837207-sessionTrack',
  name: 'Hic Track (copy)',
  assemblyNames: ['hg19'],
  adapter: {
    type: 'HicAdapter',
    hicLocation: {
      locationType: 'UriLocation',
      uri: 'https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic',
      baseUri: 'http://localhost:3000/test_data/config_demo.json',
    },
  },
  displays: [
    {
      type: 'LinearHicDisplay',
      displayId: 'hic-LinearHicDisplay-1652980837207',
      renderer: { type: 'HicRenderer', baseColor: 'rgba(16,0,255,1)' },
    },
  ],
}

I got this by making a copy of an existing track in the UI, editing the config, and then copying the config as JSON from the developer console using JSON.stringify(getSnapshot(JBrowseSession.sessionTracks[0]))

[yumisims]

thanks Colin, I got it working now, also good tip to use the developer console.