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saezlab / dorothea

R package to access DoRothEA's regulons
https://saezlab.github.io/dorothea/
GNU General Public License v3.0
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Cluster using the TF regulons #58

Closed J1205 closed 2 years ago

J1205 commented 2 years ago

Hi,

I have inquires regarding a DoRothEA in R. The output shows the variable TFs once plotting the heatmap. I wonder how I am able to collect the list of corresponding regulons (TF targets) in each cluster. Could you please give me a piece of advice?

Thanks,

dbdimitrov commented 2 years ago

Hi @J1205,

Indeed. You can easily collect the regulons by simply looking at DoRothEA's resource/dataframe.

For example, if you are interested in STAT2 (target are the genes in the regulons in each tf): dorothea::dorothea_hs %>% filter(tf=="STAT2")

Then you can combine this information with your count matrix for any downstream analysis of your preference.