Error from Using FindVariableFeatures Function in Seurat Package

Question

[Binghong]

When I use FindVariableFeatures to process a Seurat object:

Seurat_object<- FindVariableFeatures(Seurat_object, 
                      selection.method = "vst", 
                      nfeatures = 2000) 

I encounter an error with the following message:

Error in simpleLoess(y, x, w, span, degree = degree, parametric = parametric, : (converted from warning) pseudoinverse used at -2.1703

Does anyone know how to resolve this issue? Any guidance is appreciated!

Answer 1

[Ming Tommy Tang]

can you try FindVariableFeatures(Seurat_object, selection.method = "vst", nfeatures = 2000, loess.span = 0.5) increase the loess.span

[Binghong]

Thanks for your guidance, I have a try!