c2v.pl.graph

c2v.pl.graph(adata, graph_key='connectivities', basis='X_umap', oriented=False, ax=None, return_fig=False, show=False, linewidth=1.0, linecolor='black', linealpha=1.0, arrowstyle=None, mutation_scale=10.0, width_condition=None, color_condition=None, figsize=None, **kwargs)

Draws graph on top of the embedding.

Parameters:

adata sc.AnnData

AnnData object with graph in obsp[graph_key].

graph_key str, optional

Key in obsp to store graph. Default is “connectivities”.

basis str, optional

Key in obsm to store embedding. Default is “X_umap”.

oriented bool, optional

Whether to draw oriented edges. Default is False.

ax matplotlib.axes.Axes, optional

Axes to draw on. Default is None.

return_fig bool, optional

Whether to return figure. Default is False.

linewidth float, optional

Line width. Default is 1.

linecolor str, optional

Line color. Default is “black”.

linealpha float, optional

Line alpha. Default is 1.

arrowstyle str, optional

Arrow style. Default is None.

mutation_scale float, optional

Mutation scale. Default is 10.

width_condition Callable, optional

Function to calculate line width. Default is None.

color_condition Callable, optional

Function to calculate line color. Default is None.

figsize tuple[float, float], optional

Figure size. Default is None.

**kwargs dict, optional

Additional keyword arguments for sc.pl.embedding.

show bool

Return type:

matplotlib.axes.Axes | matplotlib.figure.Figure | None

Returns:

matplotlib.axes.Axes | matplotlib.figure.Figure | None Draws with the graph on top.