Hello everyone, I used singleR to annotate my clustered Seurat dataset. Before annotating using singleR I did manual annotation using marker genes. Below is the result of my manual annotation
Then, I used singleR and below is the annotation results.
The result shows that I can trust my manual annotation. However, I see overlapping clusters in the last annotation. For examples, I have some oligodendrocytes clustering with microglia coloured in blue and some are clustered with Astrocyte. I was wondering what it means and what is the best approach here if I want to use the second annotation umap plot. Should I get rid of those oligodendrocytes clustering with other cell types? or any other recommendation? I appreciate any comment on this.