addHeatMap: Title

In adam2o1o/treekoR: Cytometry Cluster Hierarchy and Cellular-to-phenotype Associations

Title

Description

a function to add a heatmap of cluster medians alongisde the phylogenetic tree

Usage

addHeatMap(
  p,
  cluster_medians,
  offset = 0.5,
  width = 1,
  expand_y_lim = 20,
  low = "#313695",
  mid = "ivory",
  high = "#A50026",
  colnames_angle = 90,
  metric_name = "Column z-score"
)

Arguments

p	a phylogenetic tree plot created from the ggtree() function
cluster_medians	a dataframe with the cluster medians. The rownumbers of the clusters median data frame should correspond to the nodes in the phylo tree. The column names should also correspond to the labels you want to use
offset	the distance between the tree plot and heatmap
width	width of each tile in the heatmap
expand_y_lim	white space below heatmap
low	colour used for low values on heatmap
mid	colour used for medium values on heatmap
high	colour used for large values on heatmap
colnames_angle	angle for x-axis label
metric_name	legend title

Value

an interactive ggplot graph object with heatmap of median cluster expressions plotted alongside hierarchical tree

adam2o1o/treekoR documentation built on June 2, 2023, 11:42 p.m.