phlower.pl.fate_velocity_plot
- phlower.pl.fate_velocity_plot(adata, fate_tree='fate_tree', layout_name=None, group_name='group', graph_name=None, figtype: str:stream, grid, point = 'grid', grid_density: int = 50, streamdensity: int = 1.2, n_neighbors: int = 4, embedd_label=True, embedd_label_style='text', embedd_label_font=10, show_legend: bool = False, show_nodes=True, radius: float = 50, ax=None, node_alpha: float = 0.5, maxlinewidth=4, alpha: float = 0.5, **kwargs)
Plot fate velocity on a fate tree.
Parameters
- adata: anndata.AnnData
Annotated data matrix.
- fate_tree: str
The name of the fate tree in adata.uns.
- layout_name: str
The name of the layout in adata.uns.
- group_name: str
The name of the group in adata.uns.
- graph_name: str
The name of the graph in adata.uns.
- figtype: str
The type of the figure. “grid” for grid plot, “stream” for stream plot, “point” for point plot.
- grid_density: int
The density of the grid.
- streamdensity: float
The density of the stream.
- n_neighbors: int
The number of neighbors for the nearest neighbor graph.
- embedd_label: bool
Whether to show the label of the embedding.
- embedd_label_style: str
The style of the label of the embedding. “text” for text label, “arrow” for arrow label.
- embedd_label_font: int
The font size of the label of the embedding.
- show_legend: bool
Whether to show the legend.
- radius: float
The radius of the grid.
- ax: matplotlib.axes.Axes
The axes of the plot.
- node_alpha: float
The transparency of the nodes.
- maxlinewidth: float
The maximum width of the lines.
- alpha: float
The transparency of the lines.