Hello,
I have a sample that contains hashtags. I did QC using scanpy and then I used sce.pp.hashsolo
to demultiplex the hashtags.
I was wondering if I need to remove the doublets from the data. Normally I use scrublet for that but I am not sure if I should do QC then scrublet then hashsolo or if I should use scrublet after hashsolo. I also see that hashsolo includes a doublet output so I am not sure if I should remove those cells from the sample.
Thank you