Can SingleR be reused to identify cell types after subsetting the original Seurat Object
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29 days ago
leranwangcs ▴ 60

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

scRNA • 139 views
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Entering edit mode
29 days ago

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.

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