Subscript out of bounds - Running parameter sweep

chris-mcginnis-ucsf / DoubletFinder

R package for detecting doublets in single-cell RNA sequencing data

412 stars 109 forks source link

Subscript out of bounds - Running parameter sweep #182

Open rahmaqadeer opened 10 months ago

rahmaqadeer commented 10 months ago

I am using Seurat version 5.0.1 and DoubletFinder_2.0.3 and encountering this error. Do you have any guides regarding this?

sweep.res.list_data_all <- paramSweep(data_all, PCs = 1:10, sct = FALSE)

[1] "Creating artificial doublets for pN = 5%" Error in .subscript.2ary(x, , j, drop = TRUE) : subscript out of bounds In addition: Warning message: In LayerData.Assay5(object = x, layer = i) : multiple layers are identified by counts.1 counts.2 counts.3 only the first layer is used

bkheira commented 9 months ago

Hi I am having the same issue, did you find how to do it ?

Yijia-Jiang commented 9 months ago

I encountered the similar issue

yxsee commented 7 months ago

I went back to using SplitObject instead of the Seurat v5 split layers and managed to get it working.

aditisk commented 7 months ago

I am encountering the same issue and already using SplitObject but it doesn't work for me. Does anyone have another solution? Thanks.