plotBackgroundImageBeforeCorrection: Plot background image before correction

In blima: Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level

Description

This function plots image of background distribution versus to foreground before background subtraction.

Usage

plotBackgroundImageBeforeCorrection(b, index, channelForeground = "GrnF", 
    channelBackground = "GrnB", includePearson = FALSE)

Arguments

b	Single beadLevelData object.
index	Index of spot to generate.
channelForeground	Name of channel of foreground.
channelBackground	Name of channel of background.
includePearson	Include Pearson corelation.

Author(s)

Vojt<c4><9b>ch Kulvait

Examples

if(require("blimaTestingData") && interactive())
{
    #Write background images before correction. This function prints graph for condition D4. Call dev.off() to close.
    data(blimatesting)
    p = pData(blimatesting[[2]]@experimentData$phenoData)
    index = base::match("D4", p$Name)
    plotBackgroundImageBeforeCorrection(blimatesting[[2]], index)
}else
{
    print("To run this example, please install blimaTestingData package from bioconductor by running BiocManager::install('blimaTestingData').");
}

blima documentation built on Nov. 8, 2020, 8:15 p.m.