yingyonghui
Dependency Conflict in GSVA Package of Commpath: version updating of GSVA package
I encountered an issue related to the matrixStats package, which is a dependency of the GSVA package.
When using the scorePath(obj, method = "gsva") function in the GSVA package, I encountered an error. This appears to be due to an update in the GSVA package. GSVA::gsva(expr.mat, path.list, min.sz = min.size, ...): Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct; use a method-specific parameter object (see '?gsva'). I am currently using R version 4.4.2, and GSVA package (version 2.0.5). This change has led to compatibility issues with the GSVA package, specifically affecting the functionality of the scorePath function.
Hi @Wanderer-immortal ,
Apologies for the delayed response. We have updated the CommPath package to ensure compatibility with the latest version of the GSVA package (version 2.0.5). Please download the updated CommPath package and feel free to contact us if you have any questions or need further assistance.
Best, Yonghui
