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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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GSVA error #125

Closed victorcat4 closed 3 weeks ago

victorcat4 commented 2 months ago

Hello,

I'm facing some issue using GSVA. Any ideas ?

> library(decoupleR)
> data <- get_toy_data()
> mat <- data$mat
> network <- data$network
> run_gsva(
+   mat, 
+   net, 
+   .source='source', 
+   .target='target',
+   verbose = FALSE)

Erreur dans value[[3L]](cond) : 
  No such method in GSVA: `gsva`. To learn more check ?gsva.No such method in GSVA: `plage`. To learn more check ?gsva.No such method in GSVA: `ssgsea`. To learn more check ?gsva.No such method in GSVA: `zscore`. To learn more check ?gsva.
PauBadiaM commented 2 months ago

Hi @victorcat4,

Could you provide which package versions you have for both decoupleR and GSVA? In any case, try installing the latest versions for both.