Open changve opened 2 weeks ago
same issue
I stably solve the problem by
seu.input@active.assay = "RNA"
right before integration.
Perhaps you can try
seu.input@active.assay = "RNA"
or seu.input@active.assay = "SCT"
.
Hope this helpful. Good luck!
Hi @BitterWood, thank you so much for your suggestion! Unfortunately, it still does not work for me :(
This seems to be an issue with your object; are you able to reproduce this issue using data distributed through SeuratData
, such as pbmc3k (which can be loaded using InstallData
and LoadData
)?
Hello, I am working with a normalized data set from: http://gerg.gsc.riken.jp/SC2018/. I'm trying to go through the integration introduction vignette. I have gone through the steps in this section but proceeding to
IntegrateLayers(object = stripped.seu, method = CCAIntegration, orig.reduction = "pca", new.reduction = "integrated.cca", verbose = FALSE)
on my Seurat object, I'm getting the following error:I've seen @7318 but I'm using log normalized rather than SCT. I only have one assay which is "RNA".
This is my session info: