higlass-python icon indicating copy to clipboard operation
higlass-python copied to clipboard

Add Support for Loading Gene-Annotation Files with BigWig Tracks

Open smitkadvani opened this issue 2 years ago • 1 comments
trafficstars

Description:

When using higlass-python, I'm aiming to display gene annotations alongside the BigWig track. Currently, I'm unable to identify any functionality that allows for the creation of a tileset which can then be added to a track.

Current State: The below image showcases my output without any gene-annotation: image

Expected Outcome: For reference, I'd like the output to appear similar to this (with gene-annotation included): image

It's essential for my project to be able to load the gene-annotation directly from my local machine. One potential method I've considered is to load the view configuration file and then load the gene-annotation by calling the function https://github.com/higlass/higlass-python/blob/91ab3dbd33e31f7f296337aaf14ab6290634b394/src/higlass/tilesets.py#L70.. However, my primary requirement is to facilitate this from my local server.

I would appreciate any guidance or suggestions on achieving this.

Thank you.

smitkadvani avatar Sep 13 '23 02:09 smitkadvani

What file format you have for your gene annotation? The first would be to generate a gene annotation data and use the gene annotation track from higlass: https://docs.higlass.io/data_preparation.html#create-a-gene-annotation-track-file

manzt avatar Jan 25 '24 16:01 manzt