Transcription factor activity inference

saezlab / decoupleR

R package to infer biological activities from omics data using a collection of methods.

https://saezlab.github.io/decoupleR/

GNU General Public License v3.0

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Transcription factor activity inference #114

Closed ramyavenk closed 7 months ago

ramyavenk commented 7 months ago

Hi, I am trying to download transcription factor and its target resource for mouse using get_collectri function from decoupleR package. However, if I change the organism argument to "mouse", it is still giving me human reference. I am not sure what the problem is. Could you please look into the issue and help me troubleshoot it ?

Here, is the snippet of the code that I am running.

net <- get_collectri(organism='mouse', split_complexes=FALSE)

PauBadiaM commented 7 months ago

Hi @ramyavenk

Please install the latest version of decoupler from GitHub, then it should work:

remotes::install_github('saezlab/decoupleR')

Let me know how it goes, hope this is helpful.

ramyavenk commented 7 months ago

Hi @PauBadiaM

Thanks! It worked.