metalsinglecell.gr.calculate_niche

metalsinglecell.gr.calculate_niche(adata, cluster_key, n_niches=10, connectivity_key='spatial_connectivities', key_added='niche', random_state=0, copy=False)

Spatial niches from neighborhood composition (sq.gr.calculate_niche); writes obs[key_added].

Parameters:

• n_niches (int)

• connectivity_key (str)

• key_added (str)

• random_state (int)

• copy (bool)