scglue.data.metacell_corr

scglue.data.metacell_corr(*adatas, skeleton=None, method='spr', agg_fns=None, prep_fns=None, **kwargs)

Metacell based correlation

Parameters

• *adatas – Datasets to be correlated

• skeleton (typing.Optional[Graph]) – Skeleton graph determining which pair of features to correlate

• method (str) – Correlation method, must be one of {“pcc”, “spr”}

• agg_fns (typing.Optional[typing.List[str]]) – Aggregation functions used to obtain metacells for each dataset, must be one of {“sum”, “mean”}

• prep_fns (typing.Optional[typing.List[typing.Optional[typing.Callable[[AnnData], None]]]]) – Preprocessing functions to be applied to metacells for each dataset, None indicates no preprocessing

• **kwargs – Additional keyword arguments are passed to get_metacells()

Return type

Graph

Returns

corr – A skeleton-based graph containing correlation as edge attribute “corr”

Note

All aggregation, preprocessing and correlation apply to adata.X.