scFates.pl.graph

scFates.pl.graph(adata, basis=None, size_nodes=None, alpha_nodes=1, linewidth=2, alpha_seg=1, color_cells=None, tips=True, forks=True, nodes=[], rasterized=True, ax=None, show=None, save=None, **kwargs)

Project principal graph onto embedding.

Parameters:

adata AnnData

Annotated data matrix.

basis Optional[str] (default: None)

Name of the obsm basis to use.

size_nodes Optional[float] (default: None)

Size of the projected prinicpal points.

alpha_nodes float (default: 1)

Alpha of nodes.

linewidth float (default: 2)

Line width of the segments.

alpha_seg float (default: 1)

Alpha of segments.

color_cells Optional[str] (default: None)

cells color

tips bool (default: True)

display tip ids.

forks bool (default: True)

display fork ids.

nodes Optional[List] (default: [])

display any node id.

rasterized bool (default: True)

Rasterize the segments and nodes.

ax default: None

Add plot to existing ax

show Optional[bool] (default: None)

show the plot.

save Union[str, bool, None] (default: None)

save the plot.

kwargs

arguments to pass to scanpy.pl.embedding()

Returns:

If show==False a Axes