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single cell dataset

Open wangjiawen2013 opened this issue 1 year ago • 1 comments

Hi, Does pydeseq2 support single cell data now? such get the differential expressing genes of each cluster/cell_type?

wangjiawen2013 avatar Mar 12 '24 05:03 wangjiawen2013

Hi @wangjiawen2013! Yes, it's possible to analyse single-cell data with pydeseq2 + decoupleR and/or scanpy.

See this decoupleR vignette or this youtube tutorial.

BorisMuzellec avatar Mar 12 '24 08:03 BorisMuzellec