scirpy.tl.clonotype_network_igraph

scirpy.tl.clonotype_network_igraph(adata, basis='clonotype_network', airr_mod='airr')

Get an igraph object representing the clonotype network.

Requires running scirpy.tl.clonotype_network() before, to compute the layout.

Parameters

adata : AnnData | MuData | DataHandlerUnion[AnnData, MuData, DataHandler]: AnnData or MuData object that contains AIRR information.
basis: Key in adata.obsm where the network layout is stored.
airr_mod: Name of the modality with AIRR information is stored in the MuData object. if an AnnData object is passed to the function, this parameter is ignored.

Return type

Tuple[Graph, Layout]

Returns