Error in UseMethod("runINMF", object) : no applicable method for 'runINMF' applied to an object of class "list"

[wang0430]

Hello, I encountered this error in the analysis, can you help to see how to solve it

sample = RunOptimizeALS(sample, k = 30, lambda = 5, split.by = "orig.ident")
Error in UseMethod("runINMF", object) :
no applicable method for 'runINMF' applied to an object of class "list"
class(sample)
[1] "Seurat"
attr(,"package")
[1] "SeuratObject"

[mvfki]

Hi,

Thanks for using LIGER. It seems like you are using the SeuratWrapper package, which is out of date in this part. We had a major update in our package earlier this year which is not compatible with the old implementation.

To apply LIGER methods on a Seurat object, please refer to our specific documentation article at https://welch-lab.github.io/liger/articles/liger_with_seurat.html

We will deprecate the wrappers for LIGER in the SeuratWrapper package in the near future.

Merry Christmas,
Yichen