Label transfer from RNA to ATAC

[RegnerM2015]

Hi @jgranja24 @jeffmgranja

I had a question regarding this sentence from the methods section:

"Matching scATAC-seq-scRNA-seq pairs using Seurat’s canonical correlation analyses.
To integrate our epigenetic and transcriptomic data we built on previous approaches for integration10,37. We found the approach that worked best for our integrative analyses was using Seurat’s CCA. We performed integration for each biological group separately because (1) it improved alignment accuracy and (2) required much less memory."

For each biological group separately, you mean for each cell type separately? Does this mean you took a multi-patient RNA dataset of only CD8T cells and aligned it with the full ATAC dataset composed of all your patients and all of your cell types?

Thanks in advance!