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aertslab / SCope

Fast visualization tool for large-scale and high dimensional single-cell data
GNU General Public License v3.0
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SCope Genes in Regulon Tab Broken: No rows #519

Open wbrett87 opened 1 year ago

wbrett87 commented 1 year ago

Hi everyone,

Thanks for making this awesome software! I tried uploading a new integrated output file from pyscenic to the SCope viewer and I can see most of the data, with the exception of the genes in regulons tab. It is saying that there is "no rows". I tested the viewer on a integrated output loomfile that had previously worked but it seems to have the same problem. I attached an image of the tab so you can see what I'm talking about.

Thanks, and I appreciate any help you can afford!

image

lsryap commented 10 months ago

I'm having this same problem. I found an old issue on here which states : dweemx commented on Jan 17, 2019 • There is a hard coded convention for the regulon names which can cause the right pane in the regulon tab not to be displayed.

The regulon genes and the regulon motif will not be displayed if regulons are named like: [TF-name]([number-of-genes-in-regulon]g) e.g.: Abd-B(17g)

The regulon genes and the regulon motif will be displayed if regulons are named like: [TF-name] ([number-of-genes-in-regulon]g) e.g.: Abd-B (17g)

However in my loom file they are showing as Abd-B (17g). Did you manage to sort yours? It's driving me mad!!

KrisDavie commented 10 months ago

Hey @lsryap,

Can you let me know what your session id and loom file name is, I can try and take a look and see if I can work out the issue.

If you don't want to share it publicly, you can email me at: kristofer.davie@kuleuven.be

Cheers,

Kris