plotStringencyGene: plot the Stringency related control probe profiles

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

Description

Plot the Stringency related control probe (Low-Stringency, Medium-Stringency and High-Stringency) profiles. Using getControlType function to view available stringency types.

Usage

plotStringencyGene(controlData, lib = NULL, slideIndex = NULL, addLegend = TRUE, logMode = TRUE, ...)

Arguments

controlData	a LumiBatch object including control data or a control data data.frame
lib	the annotation library (for retrieving the gene name)
slideIndex	the slide index or ID corresponding to each sample
addLegend	whether add legend or not
logMode	whether show the data in log2 scale
...	other parameters used by default matplot function

Value

plot the picture and return TRUE if everything is OK

Author(s)

Pan Du

See Also

addControlData2lumi, plotControlData

Examples

	controlFile <- system.file('doc', 'Control_Probe_Profile.txt', package='lumi')
	if (file.exists(controlFile)) {
  	controlData <- getControlData(controlFile)
  	plotStringencyGene(controlData)
	}

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