density-methods: Density plot of a ExpressionSet object

In lumi: BeadArray Specific Methods for Illumina Methylation and Expression Microarrays

Description

Creating density plot of sample intensities in a ExpressionSet object. It is equivalent to hist-methods.

Usage

## S4 method for signature 'ExpressionSet'
density(x, logMode=TRUE, xlab = NULL, ylab = "density", type = "l", 
	col=1:dim(x)[2], lty=1:dim(x)[2], lwd=1, xlim = NULL, index.highlight = NULL, color.highlight = 2, 
	symmetry = NULL, addLegend = TRUE, legendPos="topright", subset = NULL, main="", ...)

Arguments

x	a ExpressionSet object
logMode	determine whether the density plot is based on a log2 scale
xlab	xlab of the density plot
ylab	ylab of the density plot
type	parameter of plot function
col	line colors of the density plot
lty	line types of the density plot
lwd	line width of plot function
xlim	parameter of the plot function
index.highlight	the column index of the highlighted density curve
color.highlight	color of highlighted density curve
symmetry	the boundary position suppose to be symmetric distributed
addLegend	whether add legend to the plot or not
legendPos	the legend position. It can be a string specifying the position, or a length two vector specifying the x and y position. Please check legend for more details.
subset	subset of rows used to plot. It can be an index vector, or the length of a random subset
main	title for the plot
...	additional parameters for density function

See Also

LumiBatch-class, hist-methods, density

Examples

## load example data
data(example.lumi)

density(example.lumi)

lumi documentation built on Nov. 8, 2020, 5:27 p.m.