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aertslab / pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, 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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[results] aucell on negative regulons #215

Closed leonardHerault closed 3 years ago

leonardHerault commented 4 years ago

Hello, I have a question regarding AUCell scores of negative regulons. I understand that the higher the expression of the factor targets in the cell, the higher the score. So for negative regulons, low scores should be considered as marking "active" negative regulons? Thanks,

Léonard

cflerin commented 3 years ago

Hi @leonard9338 ,

I guess you are talking about repressing TFs that are negatively correlated with the target gene expression. But the AUCell score works the same way for all types of regulons: high AUCell scores indicate high biological activity for that regulon in a given cell. The distinction of repressing/activating regulons is done based on the TF-gene expression correlation and doesn't affect the AUCell score.