moscot.problems.space.MappingProblem.spatial_correspondence

MappingProblem.spatial_correspondence(interval=10, max_dist=None, attr=None)

Compute structural correspondence between spatial and molecular distances.

Parameters:

• interval (Union[int, ndarray[tuple[int, ...], dtype[floating]], Array]) – Interval for the spatial distance. If int, it will be set from the data.

• max_dist (Optional[int]) – Maximum distance for the interval. If None, it will set from the data.

• attr (Optional[Dict[str, Optional[str]]]) –

  How to extract the data for correspondence. Valid options are:

  • None - use X.

  • dict - key corresponds to an attribute of AnnData and value to a key in that attribute. If the value is None, only the attribute will be used.

Return type:

DataFrame

Returns:

: A dataframe with the following columns:

• 'features_distance' - average spatial distance.

• 'index_interval' - index of the interval.

• 'value_interval' - average expression distance.

• '{batch_key}' key of the batch (slide).