integrate two single cell datasets and use transfer learning approach using annotated cell atlas

Question

[das2000sidd]

Hi everyone,

I am very frustrated with this and hence decided to reach out here.

Does anyone have experience with scRNA seq where you use a pre annotated single cell atlas and integrate your data to look for similarities from cell type of pre annotated single cell atlas and the given data?

There is a tool called scArches to do this but was wondering if somebody had worked on a similar problem and could just tools or pipelines to follow?

Thanks so much!

Answer 1

[jared.andrews07]

You will likely be very interested in SingleR.

[das2000sidd]

Thanks so much for recommending this.