Add new data to existing integration

Help scvi-tools
1

Hi all,

I have a large integrated adata (~4M cells) through SCVI (with 2K HVG) and now I am going to add a small new single-cell data (28K cells) into the large integration. Is there a quick way to “project” the large integration to the smaller new data? Or do I have to start from the beginning, concatenate original full set and then select HVG and retraining for SCVI and SCANVI label transferring?

2

I think you are looking for scarches, where the ref data is your large integrated model and the query data is that small new single cell.
please follow this tutorial:

1 Like