This seems like a straightforward thing, but I couldn’t find the answer.
Is batch_key
treated the same as categorical_covariates
or does it have a special handling?
I.e., is there a difference between calling setup_anndata(..., batch_key="batch", categorical_covariate_keys=["protocol"])
and setup_anndata(..., categorical_covariate_keys=["batch", "protocol"])
I apologize if I missed it somewhere in the docs, and would gladly follow any reference there : )