Label Transfer Using the SCVI-tools

[aydinbol]

Hello. Thank you for this package. I'm doing an integration analysis using more than 40 scATAC samples. However, I do not have scRNA data from the same cells. I tried doing the label transfer using the SCVI-tools as you demonstrated here: https://kzhang.org/SnapATAC2/tutorials/annotation.html

The RNA-seq data I'm using is from the same disease model, but the cells are not overlapping at all. It looks like this:

Do you have any suggestions to improve the label transferring? Do you have any plans of adding the FindTransferAnchors function from the Seurat package or do you think it is a better approach?

Thank you.