Graph selection

By default we use the alpha-decay kernel from PHATE. We implemented other types of kernels, to use them you need to install our package with [dev].

 get_umap_graph (X, knn=5, **kwargs)

 get_scanpy_graph (X, knn=5, **kwargs)

 get_alpha_decay_graph (X, knn:int=5, decay:float=40.0,
                        anisotropy:float=0, n_pca:int=None, **kwargs)

 get_knn_graph (X, knn=5, **kwargs)

 diff_aff (graph)

Compute the diffusion affinity for a pygsp graph.

 kernel_degree (graph)

Compute the kernel degree for a pygsp graph.

 diff_op (graph)

Compute the diffusion operator for a pygsp graph.