How to set different colors for bigwig tracks?

[typekey]

Hello, I am going to set different colors for different bigwig tracks, similar to UCSC Genome Browser, but I don’t seem to find relevant options in the manual.

[cmdcolin]

This is a bit involved but this could be a way to do it via the command line

jbrowse add-track yourfile.bw --config '{"displays": [{"displayId": "coverage_1", "type":"LinearWiggleDisplay", "renderers": {"XYPlotRenderer": {"color": "green", "type": "XYPlotRenderer"} } }]}' --load copy

We currently have the "color" as part of the renderer instead of the track config, which makes it a bit more deeply nested than you might expect....

[typekey]

Thanks you!
your help is great

[garrettjstevens]

You can also change the color of the BigWig track using the graphical config editor. You can access this by clicking "Settings" in the menu of the track selector:

The "Settings" option will be available if you are configuring JBrowse with the JBrowse CLI's admin-server (see here),

If you want to experiment with different settings before changing your config file (and without running admin-server), I recommend making a copy of the track (see here) and editing the copy. The copy of the track exists only in the current session of JBrowse and is not part of your config file.

[typekey]

Thanks, this way is very useful!

[cmdcolin]

Example for changing feature color on a gff3tabix/svgfeaturerenderer track

jbrowse add-track yourfile.sort.gff3.gz --config '{"displays": [{"displayId": "basicdisplay","type":"LinearBasicDisplay", "renderer": {"color1": "green", "type": "SvgFeatureRenderer"}}]}' --load copy