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Hi-C track configuration

Example Hi-C track config:

{
  "type": "HicTrack",
  "trackId": "hic",
  "name": "HiC Track",
  "assemblyNames": ["hg19"],
  "adapter": {
    "type": "HicAdapter",
    "hicLocation": {
      "uri": "https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic",
      "locationType": "UriLocation"
    }
  }
}

HicAdapter config​

The HicAdapter currently only requires a hicLocation:

{
  "type": "HicAdapter",
  "hicLocation": {
    "uri": "https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic",
    "locationType": "UriLocation"
  }
}

A reduced form is also accepted:

{
  "type": "HicAdapter",
  "uri": "https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic"
}

HicRenderer config​

  • baseColor - the base color of the Hi-C plot (default #f00). Change to e.g. #00f for blue shading
  • color - a color callback that maps a contact count to a rendered color. The default is jexl:interpolate(count,scale), where count is the contact count for the block, maxScore is the maximum count in the current view, baseColor is the configured base color, and scale is a pre-built interpolator from white to baseColor (see configSchema.ts for the current defaults)