scirpy.tl.clonotype_network_igraph

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 (Union[AnnData, MuData, DataHandler]) – AnnData or MuData object that contains AIRR information.

  • basis (default: 'clonotype_network') – Key in adata.obsm where the network layout is stored.

  • airr_mod (default: 'airr') – 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:

graph

igraph object

layout

corresponding igraph Layout object.