ehrapy.anndata.anndata_to_df¶

ehrapy.anndata.anndata_to_df(adata, layer=None, obs_cols=None, var_cols=None)[source]¶

Transform an AnnData object to a Pandas DataFrame.

Parameters:

adata (AnnData) – The AnnData object to be transformed into a pandas DataFrame
layer (str, default: None) – The layer to access the values of. If not specified, it uses the X matrix.
obs_cols (Iterable[str] | str | None, default: None) – The columns of obs to add to the DataFrame.
var_cols (Iterable[str] | str | None, default: None) – The columns of var to fetch values from.

Return type:

DataFrame

Returns:

The AnnData object as a pandas DataFrame

Examples

>>> import ehrapy as ep
>>> adata = ep.dt.mimic_2(encoded=True)
>>> df = ep.ad.anndata_to_df(adata)