Why I got regulons with fewer than 20 genes?

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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Why I got regulons with fewer than 20 genes? #112

Closed Sophia409 closed 2 years ago

Sophia409 commented 4 years ago

Hello, aertslab

Since all regulons targeting fewer than 20 genes are dropped (in the modules_from_adjacencies function, why I got regulons with fewer than 20 genes?

Hope for your reply

liuyifang commented 3 years ago

Hi, I am also curious about this question.

Sophia409 commented 3 years ago

@s-aibar

cflerin commented 3 years ago

modules_from_adjacencies is a pySCENIC function, but in there, the 20 gene threshold is for the creation of the coexpression modules. Once these modules are pruned into the final regulons, it's possible for the regulon to have fewer than 20 genes.