Velocity Ligand Importance Heatmap — velocity_ligand_importance

Visualize the ligands and their feature importances towards the velocity clusters.

Usage

velocity_ligand_importance_heatmap(
  obj,
  velocity_clusters = NULL,
  n_top_ligands = 5,
  ligand_target_matrix,
  color_low = "#f6ffff",
  color_high = "#01bfc4",
  colorscale = "BuPu",
  rescale_columns = TRUE
)

Arguments

obj: A seurat object that has been analyzed with entrain_velocity
velocity_clusters: Character vector of velocity clusters to include in the plot. Default NULL - include all velocity clusters,
n_top_ligands: Number of top ligands to visualize. Default 5.
ligand_target_matrix: NicheNet ligand-target data file.
color_low: Hex code of lower limit
color_high: Hex code of upper limit.
colorscale: Name of a color palette to be passed to the palette argument of scale_fill_distiller. Overrides color_low and color_high.
rescale_columns: Boolean. If TRUE, rescales all ligand importances between 0 and 1. This is recommended because random forest importances are relative.

Value

A gglot2 plot object.