test_alter_fun: Test alter_fun for oncoPrint()

In ComplexHeatmap: Make Complex Heatmaps

Description

Test alter_fun for oncoPrint()

Usage

test_alter_fun(fun, type, asp_ratio = 1)

Arguments

fun	The alter_fun for oncoPrint. The value can be a list of functions or a single function. See https://jokergoo.github.io/ComplexHeatmap-reference/book/oncoprint.html#define-the-alter-fun
type	A vector of alteration types. It is only used when fun is a single function.
asp_ratio	The aspect ratio (width/height) for the small rectangles.

Details

This function helps you to have a quick view of how the graphics for each alteration type and combinations look like.

Examples

alter_fun = list(
	mut1 = function(x, y, w, h) grid.rect(x, y, w, h, gp = gpar(fill = "red", col = NA)),
	mut2 = function(x, y, w, h) grid.rect(x, y, w, h, gp = gpar(fill = "blue", col = NA)),
	mut3 = function(x, y, w, h) grid.rect(x, y, w, h, gp = gpar(fill = "yellow", col = NA)),
	mut4 = function(x, y, w, h) grid.rect(x, y, w, h, gp = gpar(fill = "purple", col = NA)),
	mut5 = function(x, y, w, h) grid.rect(x, y, w, h, gp = gpar(lwd = 2)),
	mut6 = function(x, y, w, h) grid.points(x, y, pch = 16),
	mut7 = function(x, y, w, h) grid.segments(x - w*0.5, y - h*0.5, x + w*0.5, y + h*0.5, gp = gpar(lwd = 2))
)
test_alter_fun(alter_fun)

Example output

Loading required package: grid
========================================
ComplexHeatmap version 2.6.2
Bioconductor page: http://bioconductor.org/packages/ComplexHeatmap/
Github page: https://github.com/jokergoo/ComplexHeatmap
Documentation: http://jokergoo.github.io/ComplexHeatmap-reference

If you use it in published research, please cite:
Gu, Z. Complex heatmaps reveal patterns and correlations in multidimensional 
  genomic data. Bioinformatics 2016.

This message can be suppressed by:
  suppressPackageStartupMessages(library(ComplexHeatmap))
========================================

`alter_fun` is defined as a list of functions.
Functions are defined for following alteration types:
  mut1, mut2, mut3, mut4, mut5, mut6, mut7 

ComplexHeatmap documentation built on Nov. 14, 2020, 2:01 a.m.