SCENIC on demultiplexing cell hashing results

aertslab / SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

http://scenic.aertslab.org

GNU General Public License v3.0

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SCENIC on demultiplexing cell hashing results #216

Closed fouerghi closed 2 years ago

fouerghi commented 2 years ago

I have a sample where I have hashed 8 conditions and I am wondering that if I want to do a pairwise comparison between the cells in each condition, should I run SCENIC overall or should I run it each two conditions at a time? Thanks!