boxplot of a ExpressionSet object

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Description

Creating boxplot of sample intensities in a ExpressionSet object

Usage

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## S4 method for signature 'ExpressionSet'
boxplot(x, range = 0, main, logMode = TRUE, subset = NULL, xlab = "", ylab = "Amplitude", ...)

Arguments

x

a ExpressionSet object

range

parameter of boxplot

main

title of the boxplot

logMode

whether plot the data in log2 scale or not

subset

subset of rows used to plot. It can be an index vector, or the length of a random subset

xlab

xlab of the plot

ylab

ylab of the plot

...

optional arguments to boxplot.

Details

The boxplot function has a "subset" parameter. By default, it is set as 5000, i.e., randomly selected 5000 probes to plot the boxplot. The purpose of this is to plot the picture faster, but it will also make the boxplot has slightly different each time. If the user wants to make sure the boxplot is the same each time, you can set the "subset" parameter as NULL.

See Also

LumiBatch-class, boxplot and boxplot,MethyLumiM-method

Examples

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## load example data
data(example.lumi)

boxplot(example.lumi)

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