plotValidationGraph: plot of Validation Graph for determing number of components

In GreenwoodLab/funtooNorm: Normalization Procedure for Infinium HumanMethylation450 BeadChip Kit

plot of Validation Graph for determing number of components

Description

Plots a series of graphs for each signal type, to determine the number of components to include in the normalization procedure.

Usage

plotValidationGraph(object, type.fits = "PCR", pdf.file = NULL)

## S4 method for signature 'SampleSet'
plotValidationGraph(object, type.fits = "PCR",
  pdf.file = NULL)

Arguments

object	of class SampleSet
type.fits	can be "PCR" or "PLS" (default "PCR")
pdf.file	if no file name is provided print pdf file plotValidationGraph.pdf in working directory.

Value

No value is returned. The function prints the plots to a pdf file.

Methods (by class)

• SampleSet: Plots a series of graphs for each signal type, to determine the number of components to include in the normalization procedure.

Examples

require(minfiData)
pData(RGsetEx)$cell_type <- rep(c("type1","type2"),3)
mySampleSet=fromRGChannelSet(RGsetEx)
plotValidationGraph(mySampleSet)

GreenwoodLab/funtooNorm documentation built on April 5, 2022, 3:22 p.m.