Axel Klenk

icon company Universitat Pompeu Fabra icon location Barcelona, Spain

Results 9 comments of Axel Klenk

Result of gsva is all NA

Dear Yiheng Jiang, the easiest way to solve your problem probably is to upgrade to the latest version, i.e. R-4.4.0, Bioconductor 3.19 and GSVA 1.52.0 (or later), brandnew and available...

Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

From https://github.com/rcastelo/GSVA/issues/172 Thanks for using GSVA. The previous API of GSVA has been changed to make use of parameter objects and, as the message says, is now defunct after a...

Use of the dgCMatrix container

Hi Moritz, thanks for bringing this to our attention. As you can see from this issue #113, improved handling of sparse matrices is under active development and the problem you...

Use of the dgCMatrix container

We have backported the fix to your bug report and it is available in GSVA 1.50.1 in the current Bioconductor release 3.18. In addition, I have tracked down the reason...

Error when using Data Input From Workspace in Shiny app

Sorry, GitHub, we're not finished yet: there's at least two more bugs remaining in the Shiny app waiting to be fixed.

Error when using Data Input From Workspace in Shiny app

Hi, an update on this issue: while I have not yet been able to find its cause and fix it, it will only occur 1. when using `GSVA`via the Shiny...

Error when using Data Input From Workspace in Shiny app

> Me too！when I use this GSVA in shihy，It bleak out. Hi, thanks for using GSVA -- but this is not enough information to help you. As described above, there...

> gsva_es <- gsva(as.matrix(gsym.expr), gs) Error in gsva(as.matrix(gsym.expr), gs) : Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct; use a method-specific parameter object (see '?gsva').

Thanks for using GSVA. The previous API of GSVA has been changed to make use of parameter objects and, as the message says, is now defunct after a full release...

Error in rowVars, is this a bug?

Hi Marius, apologies for the very late response -- somehow your message has escaped our attention. **This** error is due to a change in package [matrixStats](https://cran.r-project.org/package=matrixStats) on which GSVA depends...