Include metadata when converting to Pandas DataFrame

[WeilerP]

Please describe your wishes and possible alternatives to achieve the desired result.

Description

AnnData.to_df only converts data from .X or a layer to a DataFrame. It'd be great to also add metadata column from AnnData.obs. This feature would make it easier to work with Pandas groupby on the generated DataFrame, for example.

[ivirshup]

To me, this kind of use case is covered by sc.get.obs_df. Is there some reason that doesn't do what you need?

[ivirshup]

Alternatively, adata.to_df().join(adata.obs)

[WeilerP]

To me, this kind of use case is covered by sc.get.obs_df. Is there some reason that doesn't do what you need?

It requires Scanpy instead of using AnnData directly. And yes, you can always merge the relevant columns; it'd just be easier via an argument.

[ivirshup]

It requires Scanpy instead of using AnnData directly.

Just to establish an alternative: if sc.get.obs_df instead lived in anndata, that would be sufficient?