Annotate PBMC scRNA-seq data

Question

[yzhao140]

Hi, all! I am dealing with this dataset https://support.10xgenomics.com/single-cell-multiome-atac-gex/datasets/1.0.0/pbmc_granulocyte_sorted_3k. I need to identify the cell type for each cell then do unpervised clustering etc. Do you have any suggestions?

Answer 1

[igor]

You can check this tutorial for working with a scATAC and scRNA-seq dataset where they also use PBMC data: https://satijalab.org/signac/articles/pbmc_vignette.html

[yzhao140]

Thank you very much! I will have a try.

[yzhao140]

So what can I do if I only want to use scRNA-seq data to do annotations?

[igor]

There are multiple discussions on this site about scRNA-seq cell annotation.