bro_plot_heatmap: Plot pretty heatmaps from tidy data

In jbengler/bro: bro's little helpers

Plot pretty heatmaps from tidy data

Description

This function is a wrapper around pheatmap::pheatmap() that allows long tidy data as input.

Usage

bro_plot_heatmap(
  df,
  rows,
  columns,
  values,
  filename = NA,
  ann_row = NULL,
  ann_col = NULL,
  gaps_row = NULL,
  gaps_col = NULL,
  ann_colors = NA,
  breaks = NA,
  scale = "none",
  fontsize = 7,
  cellwidth = NA,
  cellheight = NA,
  color_scale_min = NA,
  color_scale_max = NA,
  color_scale_n = 100,
  color = colorRampPalette(rev(RColorBrewer::brewer.pal(n = 7, name =
    "RdYlBu")))(color_scale_n),
  return_data = FALSE,
  cluster_rows = FALSE,
  cluster_cols = FALSE,
  border_color = NA,
  ...
)

Arguments

df	Input dataframe in long format.
rows	Column of the dataframe to use for heatmap rows.
columns	Column of the dataframe to use for heatmap columns.
values	Column of the dataframe containing the values to plot.
ann_row, ann_col	Column(s) of the dataframe to use for row and column annotation. Multiple columns can be provided as vector, e.g. c(column1, column2, column3).
gaps_row, gaps_col	Column of the dataframe to use for row and column gaps.
ann_colors	List of colors used to color code row and column annotations. See pheatmap::pheatmap() for details.
breaks	Sequence used for mapping values to colors. Is one element longer than color_scale_n. See pheatmap::pheatmap() for details.
scale	Character indicating if the values should be centered and scaled by "row", "column" or "none". Default is "row".
fontsize	Base fontsize for the plot.
cellwidth, cellheight	Cell width and hieght in points. If left NA, cells will scale to fill the available space.
color_scale_min, color_scale_max	Minimal and maximal value on color scale.
color_scale_n	Number of color on color scale.
color	Vector of colors used in heatmap.
return_data	If TRUE processed data is returned instead of plot.
...	Other parameters passed to pheatmap::pheatmap().

jbengler/bro documentation built on Aug. 1, 2023, 9:09 a.m.