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davidaknowles / leafcutter

Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
http://davidaknowles.github.io/leafcutter/
Apache License 2.0
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Bug found in hg38 annotation codes file for LeafViz #217

Open raungar opened 2 years ago

raungar commented 2 years ago

I was having the same issue as #98, in which my genes were all labelled as 1 or 2. I have discovered the source of the issue, which is that the annotation files downloaded using the leafcutter/leafviz/download_human_annotation_codes.sh script is incorrect for hg38. The genes are labelled as either "1" "2" or "3" instead of their real gene name, causing downstream errors for LeafViz.

Screen Shot 2022-08-04 at 11 54 01 AM

Could a corrected version please be uploaded to dropbox?

Thanks! -Rachel

jackhump commented 1 year ago

@davidaknowles can you look into this?

ronv-fishers commented 23 hours ago

was this ever resolved? I am running into the same issue