densityplot2d: Plots a 2D Density

In jtextor/tiltools: Miscellaneous Tools Used at the Tumour Immunology Lab

Description

This function tries to replicate 'smart' 2D density plots as they are found in flow cytometry data analysis software. These plots commonly work with millions of points. In dense regions, they will plot these as a heatmap; in sparse regions, they will show the actual points.

Usage

densityplot2d(x, y, z = NULL, nbins = 50, max.points = 5,
  colfunc = colorRampPalette(c("gray", "darkblue", "lightblue", "green",
  "yellow", "orange", "red")), tf.fun = identity, pch = 19, cex = 0.3,
  color.levels = 20, ...)

Arguments

x	vector containing the X coordinates of the points.
y	vector containing the Y coordinates of the points. which are passed on to the plotting function so the plot can be customized.
nbins	how many bins to use for histogram.
max.points	when to start plotting heatmap instead of individual points.
colfunc	color mapping for heatmap.
tf.fun	function to apply to histogram values before plotting them, log can be useful.
pch	point character to use for individual points.
cex	point character expansion to use for individual points.
color.levels	how many different colors to use for heatmap.
...	further arguments to be passed to the plotting function, such as xlim or xlab.

Examples

densityplot2d( facsdata[,1], facsdata[,2] )

jtextor/tiltools documentation built on May 10, 2019, 1:17 p.m.