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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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Visualize the result with iregulon #259

Closed rojinsafavi closed 3 years ago

rojinsafavi commented 3 years ago

Hello, I followed the tutorial, and made the following files:

Screen Shot 2021-02-10 at 8 52 18 AM

Now I would like to visualize this output with iregulon. I looked at the Iregulon tutorial page, but I couldn't find how to visualize pyscenic output there. I uploaded files here. thank you very much!

ZXDB_module_1.txt ZXDB_module_2.txt ZXDB_module_3.txt ZXDB_module_0.txt ZXDB_module_4.txt ZXDB_module_5.txt ZXDB_regulon.txt

cflerin commented 3 years ago

Did the link in the tutorial help at all? iRegulon is a separate program that you need to load the cisTarget databases and module file into, then you can explore the TF-target genes interactively.

http://iregulon.aertslab.org/tutorial.html