Can SingleR be reused to identify cell types after subsetting the original Seurat Object

Question

[leranwangcs]

Hi,

I got a Seurat object and applied SingleR to identify cell types. Then subset the epithelial cell then redid the clustering on this cell type only. So now I got some new clusters. My question is can I use SingleR again on this sub clusters to identify more cell types?

Thanks very much! Leran

Answer 1

[jared.andrews07]

Any cell-level annotations won't change based on clustering, as the underlying counts will be the same. If you're doing cluster-level annotations, then sure, you can run SingleR for as many different clustering runs as you'd like. See this section of the SingleR book for more info.