visualization

network_visualization.visualization

konnektor.visualization.visualization.draw_ligand_network(network: LigandNetwork, title: str = '', ax: Axes = None, node_size: int = 2050, edge_width: int = 3, fontsize: int = 18) → Figure

visualize a LigandNetwork as matplotlib plot, indicating the graph topology.

Parameters:

• network (LigandNetwork) – The network to be visualized

• title (str, optional) – plot title

• ax (plt.Axes, optional) – don’t build new figure, if axes given, but add img to axes

• node_size (int, optional) – size of the node visualization. (default 2050)

• edge_width (int, optional) – width of drawn edges. (default 3)

• fontsize (int, optional) – fontsize of labels. (default 18)

Returns:

return the matplotlib figure

Return type:

plt.Figure

konnektor.visualization.visualization.get_node_connectivities(cg: Graph) → list[int]

The connectivity of each node

network_visualization.widget

konnektor.visualization.widget.draw_network_widget(network: LigandNetwork, layout: str = 'cose', show_molecules: bool = True, represent_molecules_twoD: bool = False, show_mappings: bool = False) → CytoscapeWidget

For use in a jupyter noterbook, visualise a LigandNetwork

Parameters:

• network (gufe.LigandNetwork) – the network to visualise

• layout (str, optional) – how to initially layout the nodes, can be one of X/Y/Z defaults to ‘cose’

• show_molecule (bool, optional) – if to show molecule images on the representation, default True

• represent_molecules_twoD (bool, optional) – show the molecules in the nodes as 2D representations.

• show_mappings (bool, optional) – if to show mapping images on the representation, default False

konnektor.visualization.widget.get_node_connectivities(cg: LigandNetwork) → list[int]

The connectivity of each node

konnektor.visualization.widget.map2svg(mapping: AtomMapping) → str

konnektor.visualization.widget.mol2svg(mol: Mol, represent_molecules_twoD: bool = False) → str