Visualization Community | St. Jude Cloud

GenomePaint Stranded BigWig Example

Zhou Lab

Sep 28, 2021

4.8K

RNA Sequencing

In the Stranded BigWig track, view complex data such as RNAseq with forward and reverse strands. Learn more about the creating Stranded BigWig tracks.

Loading Visualization

runproteinpaint({
  host: "https://proteinpaint.stjude.org",
  holder: visualizationContainer[0],
  parseurl: true,
  block: true,
  nobox: 1,
  noheader: 1,
  genome: "hg19",
  position: "chr8:128597079-130293343",
  nativetracks: "RefGene",
  tracks: [
    {
      "name": "Stranded RNA-seq",
      "strand1":
          {"file": "proteinpaint_demo/hg19/strandedbigwig/sense.bw"},
      "strand2":
          {
            "file": "proteinpaint_demo/hg19/strandedbigwig/antisense.bw",
            "normalize": {"dividefactor": -1}
          },
      "type": "bigwigstranded"
    }
  ]
});

Visualization Code

runproteinpaint({
  host: "https://proteinpaint.stjude.org",
  holder: visualizationContainer[0],
  parseurl: true,
  block: true,
  nobox: 1,
  noheader: 1,
  genome: "hg19",
  position: "chr8:128597079-130293343",
  nativetracks: "RefGene",
  tracks: [
    {
      "name": "Stranded RNA-seq",
      "strand1":
          {"file": "proteinpaint_demo/hg19/strandedbigwig/sense.bw"},
      "strand2":
          {
            "file": "proteinpaint_demo/hg19/strandedbigwig/antisense.bw",
            "normalize": {"dividefactor": -1}
          },
      "type": "bigwigstranded"
    }
  ]
});

GenomePaint Stranded BigWig Example

Read more

Loading Visualization

Visualization Code