frequencyHeatmap: Visualize Frequency Distribution by Heatmap

In jokergoo/ComplexHeatmap: Make Complex Heatmaps

Visualize Frequency Distribution by Heatmap

Description

Visualize Frequency Distribution by Heatmap

Usage

frequencyHeatmap(data,
    breaks = "Sturges",
    stat = c("count", "density", "proportion"),
    
    col = brewer.pal(9, "Blues"),
    color_space = "LAB",
    ylab = deparse(substitute(data)),
    column_title = paste0("Frequency heatmap of ", deparse(substitute(data))),
    title = column_title,
    ylim = NULL,
    range = ylim,
    
    title_gp = gpar(fontsize = 14),
    ylab_gp = gpar(fontsize = 12),
    tick_label_gp = gpar(fontsize = 10),
    
    column_order = NULL,
    column_names_side = "bottom",
    show_column_names = TRUE,
    column_names_max_height = unit(6, "cm"),
    column_names_gp = gpar(fontsize = 12),
    column_names_rot = 90,
    cluster_columns = FALSE,
    
    use_3d = FALSE,
    ...)

Arguments

data	A matrix or a list. If it is a matrix, density is calculated by columns.
breaks	Pass to hist. Please only set equal bin size.
stat	Statistic to use.
col	A vector of colors that density values are mapped to.
color_space	The color space in which colors are interpolated. Pass to colorRamp2.
ylab	Label on y-axis.
column_title	Title of the heatmap.
title	Same as column_title.
ylim	Ranges on the y-axis.
range	Same as ylim.
title_gp	Graphic parameters for title.
ylab_gp	Graphic parameters for y-labels.
tick_label_gp	Graphic parameters for y-ticks.
column_order	Order of columns.
column_names_side	Pass to Heatmap.
show_column_names	Pass to Heatmap.
column_names_max_height	Pass to Heatmap.
column_names_gp	Pass to Heatmap.
column_names_rot	Pass to Heatmap.
cluster_columns	Whether cluster columns?
use_3d	Whether to visualize the frequencies as a 3D heatmap with Heatmap3D?
...	Pass to Heatmap or Heatmap3D (if use_3d = TRUE).

Value

A Heatmap-class object. It can oly add other heatmaps/annotations vertically.

Author(s)

Zuguang Gu <[e-mail]>

Examples

matrix = matrix(rnorm(100), 10); colnames(matrix) = letters[1:10]
frequencyHeatmap(matrix)
frequencyHeatmap(matrix, use_3d = TRUE)

jokergoo/ComplexHeatmap documentation built on Sept. 24, 2024, 4:48 p.m.