spatialHeterogeneity.preprocessing.preprocess module

Summary

Functions:

extract_centroids	Extract centroids from segementation masks.
extract_image_properties	param so SpatialOmics instance

Reference

extract_centroids(so, spl, mask_key='cellmasks', inplace=True)

Extract centroids from segementation masks.

Parameters

• so – SpatialOmics instance

• spl – sample for which to extract centroids

• mask_key – segmentation masks to use

• inplace – Whether to add the metric to the current SpatialOmics instance or to return a new one.

Returns:

extract_image_properties(so, spl, inplace=True)

Parameters

• so – SpatialOmics instance

• spl – sample for which to extract centroids

• inplace – Whether to add the metric to the current SpatialOmics instance or to return a new one.

Returns: