Question about v5 update

[shiave]

Hi, in another response, you mentioned that hdWGCNA was updated to work for seurat v5. I am getting this error:

rds <- readRDS("...")
head(rds) 
rdsveh <- subset(rds, subset = group %in% c('AV', 'AM'))
seurat_obj <- SetupForWGCNA(
  rdsveh,
  wgcna_name = "tutorial" # the name of the hdWGCNA experiment
)

Error in SelectNetworkGenes(seurat_obj, wgcna_name = wgcna_name, ...) :
No genes found

Any ideas?

[shiave]

Ok once I run these two lines, the error is removed but I get a warning.
rdsveh <- NormalizeData(rdsveh)
rdsveh <- FindVariableFeatures(rdsveh, selection.method = "vst", nfeatures = 2000)
Warning in LayerData.Assay5(object = object[[assay]], layer = layer, ...) :
multiple layers are identified by counts.1 counts.2 counts.3 counts.4 counts.5 counts.6
only the first layer is used