Open zznx opened 3 years ago
Hi @zznx, I think you may have an extremely sparse matrix which means you had too much zeros in you data. You can do some trimming which may help you. Or you can run your analysis on a lager machine which may have enough memory. Hopes this will help Kai
When I run the code,it finally works!
Seurat.object=subset(x = Seurat.object, features = VariableFeatures(object = Seurat.object)
library(scGSVA)
hsko<-buildAnnot(species="human",keytype="SYMBOL",anntype="KEGG")
res<-scgsva(pbmcs,hsko)
I think there might be something wrong, and when I run the code I get an error
library(scGSVA)
Seurat.object=subset(x = Seurat.object, features = VariableFeatures(object = Seurat.object)
Error in `[[<-`(`*tmp*`, dimreduc, value = tryCatch(expr = subset.DimReduc(x = x[[dimreduc]], :
[[<- defined for objects of type "S4" only for subclasses of environment
Hi @zznx, I guess you may need to load the Seurat package before you do subsetting. Kai
Hi @guokai8 I have loaded the Seurat package but I still have the above problem. Jx
Hi @guokai8
Error in asMethod(object) : Cholmod error 'problem too large' at file ../Core/cholmod_dense.c, line 102
Thank you for the package.And how to fix it