Hi,
I started to use this.
I have ran into 1-2 problems already. When working with a seurat object, I cant use the active.ident column which contains the name of the actual clusters rather than cluster number.
test <- CreateObject_fromSeurat(Seurat.object="comb4",
slot="counts",
cell_type="active.ident",
data_source="UMI",
scale.factor = 10^6,
Org = "Mus musculus")
Error in CreateObject_fromSeurat(Seurat.object = "comb4", slot = "counts", :
It's not Seurat object!
Only if I use the orig.ident this works. Is there a way I call for the active.ident ? Or is it that I should go back to the seurat object and then make a completely new idents class which stores this info in the metadata and then select in cell=type as above?
Or something I can do to work around this? I also have about 25 different clusters, of which I want to focus on 8 of them. Perhaps 4 at a time in the same way as the tutorial I guess.
Hi, I started to use this. I have ran into 1-2 problems already. When working with a seurat object, I cant use the active.ident column which contains the name of the actual clusters rather than cluster number.
test <- CreateObject_fromSeurat(Seurat.object="comb4",
Only if I use the orig.ident this works. Is there a way I call for the active.ident ? Or is it that I should go back to the seurat object and then make a completely new idents class which stores this info in the metadata and then select in cell=type as above? Or something I can do to work around this? I also have about 25 different clusters, of which I want to focus on 8 of them. Perhaps 4 at a time in the same way as the tutorial I guess.
Thanks a lot. K