Confirming values in the cell2location object are cell type abundances

[ChristinaSteyn]

Hi there,

A bit of an obvious question but I just wanted to confirm that the following values in the cell2location represent the abundances of each cell type? I ran the code below on the adata_vis object after running through the standard tutorial (https://cell2location.readthedocs.io/en/latest/notebooks/cell2location_tutorial.html).

n = adata_vis.uns["mod"]["factor_names"]
test = adata_vis.obs[n]

Thanks in advance!

[vitkl]

The answer to your question is yes, the reported numbers are the expected abundance of each cell type at every location.

[ChristinaSteyn]

Thanks very much!