gheatmap: gheatmap

In GuangchuangYu/ggtree: an R package for visualization of tree and annotation data

gheatmap

Description

append a heatmap of a matrix to the right side of a phylogenetic tree

Usage

gheatmap(
  p,
  data,
  offset = 0,
  width = 1,
  low = "green",
  high = "red",
  color = "white",
  colnames = TRUE,
  colnames_position = "bottom",
  colnames_angle = 0,
  colnames_level = NULL,
  colnames_offset_x = 0,
  colnames_offset_y = 0,
  font.size = 4,
  family = "",
  hjust = 0.5,
  legend_title = "value",
  custom_column_labels = NULL
)

Arguments

p	tree view
data	matrix or data.frame
offset	set offset of the heatmap to tree
width	total width of heatmap, compare to width of tree, defaults to 1, which means they are of the same length
low	set color of the lowest value, defaults to "green"
high	set color of the highest value, defaults to "red"
color	set color of heatmap cell border, defaults to "white"
colnames	logical, whether to add matrix colnames, defaults to "TRUE"
colnames_position	set the position of the colnames, one of 'bottom' (default) or 'top'
colnames_angle	set the angle of colnames
colnames_level	set levels of colnames
colnames_offset_x	set x offset for colnames
colnames_offset_y	set y offset for colnames
font.size	set font size of matrix colnames
family	font of matrix colnames, can be any supported font
hjust	adjust horizonal position of column names (0: align left, 0.5: align center (default), 1: align righ)
legend_title	title of fill legend
custom_column_labels	instead of using the colnames from the input matrix/data.frame, input a custom vector to be set as column labels

Value

tree view

Author(s)

Guangchuang Yu

References

For demonstration of this function, please refer to chapter 7.3 of Data Integration, Manipulation and Visualization of Phylogenetic Trees http://yulab-smu.top/treedata-book/index.html by Guangchuang Yu.

GuangchuangYu/ggtree documentation built on April 12, 2024, 5:20 a.m.