Integration of spatial and single cell data across multiple samples

[slee1779]

I'm new to spatial/single cell analysis, and I was wondering if someone in this platform can help me out.

I have multiple samples that underwent spatial sequencing and multiple samples from single cell (only some of which were from the same source as spatial) that I want to integrate. I was wondering if I should aggregate the samples by treatment group (control and case) for both spatial and single cell before I integrate (ie cellranger aggr, spaceranger aggr on 10x)? Or do I perform single cell integration for each sample individually?

Any advice/examples would be appreciated.