Thanks for your suggestions! I will check it!
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Binghong •
Doublets in scRNAseq analysis
Hello, I am trying to analyze scRNAseq data in R and have identified a subset of B cells that co-express CD3D and CD19, indicating doublets. However, even after removing doublets using doubletfinder, I still find these doublets present. Should I directly remove this group of cells that co-express CD3D and CD19, or are there better alternatives, as I am concerned about the presence of other doublets? Any guidance is appreciated!
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Binghong •
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I often see a small population of B cells expressing CD3D in scRNAseq data, and I also do find some papers discussing this phenomenon. I suggest you check the number of transcripts, and genes of cells from this population. If they are not abnormally high, you might consider them as a special subpopulation of B cells in your data.
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OmnibusX •
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