tsoruu
commented
5 months ago Hi @haitianyisee, I have similar problem with R version 4.3.2 with Seurat v5.0.1 from CRAN repository. This would be my guess, but I think you're using version 5 of Seurat too, judging from the "Assay5" error? I've read some discussion that downgrading the Seurat to version 3 would help in this error. I've also open an issue similar to this link
你好 我在用示例数据进行的时候出现了以下错误 brain_traint <- CellTrek::traint(st_data=brain_st_cortex, sc_data=brain_sc, sc_assay='RNA', cell_names='cell_type') Finding transfer anchors... Using 2000 features for integration... Running CCA Merging objects Finding neighborhoods Finding anchors Found 3730 anchors Data transfering... Finding integration vectors Finding integration vector weights 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **| Transfering 2000 features onto reference data Creating new Seurat object... Warning: Data is of class data.frame. Coercing to dgCMatrix. Error in CellTrek::traint(st_data = brain_st_cortex, sc_data = brain_sc, : no slot of name "counts" for this object of class "Assay5" In addition: Warning messages: 1: Command ScaleData.RNA changing from SeuratCommand to SeuratCommand 2: Adding image data that isn't associated with any assays
请问是某些R包的版本问题吗