Do I use scrublet after doing the standard preprocessing from Seurat?

[st4302]

I am trying to figure out at which point I should use scrublet. Am I supposed to do it after doing the standard preprocessing from Seurat and then import the scrub.predicted_doublets back to Seurat? Would subsetting for the nFeature_RNA affect the scrublet results?

Thank you

[Rahul1711arora]

@st4302 I think it is best that when you have the filtered_matrix, then you can run scrublet to first identify the doublets and import the results in R. This way, you can run Suerat along with doublet information already present and you can easily remove them. I hope this helps.