Plot sender influences overlayed on a RNA velocity plot — plot_sender_influence

Visualizes the contribution of each cell in the dataset towards the observed RNA velocities.

Usage

plot_sender_influence_velocity(
  adata,
  velocity_clusters,
  velocity_cluster_key = "vcluster",
  top_n_ligands = 3,
  frameon = FALSE,
  size = 40,
  sender_palette = "Reds",
  title = "Influence",
  filename = "entrain_velocity_influence.png"
)

Arguments

adata: Path to a .h5ad anndata object. Must have had entrain_velocity run on it.
velocity_clusters: Values in adata.obs.velocity_cluster_key denoting which velocity clusters to visualize. The sender influences will represent contribution towards this velocity cluster only, not all velocities in the dataset.
velocity_cluster_key: Column name of adata.obs metadata denoting velocity clusters.
top_n_ligands: Number of top ligands whose influence to visualize. Default 3.
frameon: scvelo.pl.velocity_embedding argument: Draws a frame around the plot.
size: scvelo.pl.velocity_embedding argument: Size of points.
sender_palette: A matplotlib colorscale.
title: Plot title.
filename: Filename of plot to save.

Value

NULL. Saves a plot in working directory with name filename