scFates.pl.dendrogram

scFates.pl.dendrogram(adata, root_milestone=None, milestones=None, color_milestones=False, color_seg='k', linewidth_seg=3, alpha_seg=0.3, tree_behind=False, show_info=True, show=None, save=None, **kwargs)

Plot the single-cell dendrogram embedding.

Parameters:

adata

Annotated data matrix.

root_milestone default: None

tip defining progenitor branch.

milestones default: None

tips defining the progenies branches.

color_milestones bool (default: False)

color the cells with gradients combining pseudotime and milestones.

color_seg str (default: 'k')

color the segments, either a color, or ‘seg’ colors from obs.seg.

linewidth_seg float (default: 3)

linewidth of the segments.

alpha_seg float (default: 0.3)

alpha of the segments.

tree_behind bool (default: False)

whether to plot the segment in front or behind the cells.

show_info bool (default: True)

display the colorbar or not.

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 an object of Axes