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Published 20 hours ago • verified publisher icon scverse

Within cluster DE test

Open zoesteier opened this issue 3 years ago • 2 comments

scVI used to have a within cluster DE test that I used often, but I no longer see this functionality in scvi-tools. Is it possible to add it back?

This would be a differential expression function where a "groupby" argument would specify a set of groups (e.g., cell clusters) and a "states" argument would specify the relevant comparison to make (e.g., case vs control). The output would include the DE test results from a comparison of cases vs controls within each specified group.

zoesteier avatar Mar 22 '22 01:03 zoesteier

@PierreBoyeau what do you think?

adamgayoso avatar Mar 22 '22 20:03 adamgayoso

It sounds like it would be relevant to include it back. Do you remember why we removed this feature?

PierreBoyeau avatar Mar 28 '22 16:03 PierreBoyeau