msmexplorer.plot_msm_network¶

msmexplorer.plot_msm_network(msm, pos=None, node_size=None, node_color='pomegranate', edge_color='carbon', alpha=0.7, ax=None, with_labels=True, **kwargs)¶

Plot MSM network diagram.

Parameters:

Parameters:	msm : msmbuilder.msm MSMBuilder MarkovStateModel pos : dict, optional Node positions in dict format (e.g. {node_id : [x, y]}) node_color : str or [r, g, b], optional networkx node colors node_size : int or list, optional networkx node size node_color : str, optional networkx edge color ax : matplotlib axis, optional (default: None) Axis to plot on, otherwise uses current axis. with_labels : boolean, optional Whether or not to include node labels (default: True) alpha : float, optional (default: 0.7) Opacity of nodes **kwargs : dict, optional Extra arguments to pass to networkx.draw_networkx
Returns:	ax : matplotlib axis matplotlib figure axis

msm : msmbuilder.msm: MSMBuilder MarkovStateModel
pos : dict, optional: Node positions in dict format (e.g. {node_id : [x, y]})
node_color : str or [r, g, b], optional: networkx node colors
node_size : int or list, optional: networkx node size
node_color : str, optional: networkx edge color
ax : matplotlib axis, optional (default: None): Axis to plot on, otherwise uses current axis.
with_labels : boolean, optional: Whether or not to include node labels (default: True)
alpha : float, optional (default: 0.7): Opacity of nodes
**kwargs : dict, optional: Extra arguments to pass to networkx.draw_networkx

Returns:

ax : matplotlib axis: matplotlib figure axis