popari.tl.leiden

popari.tl.leiden(datasets, resolution=1.0, tolerance=0.05, **kwargs)

Compute Leiden clustering for all datasets.

Parameters:

• trained_model – the trained Popari model.

• joint – if True, jointly cluster the spots

• datasets (Sequence[PopariDataset]) – list of datasets to cluster

• use_rep – the key in the .obsm dataframe to ue as input to the Leiden clustering algorithm.

• resolution (float) – the resolution to use for Leiden clustering. Higher values yield finer clusters..

• tolerance (float)