probePairsPlot {beadarray}R Documentation

QA plot using perfect match and mismatch controls

Description

QA using the hybridisations controls that are identical expect for a few bases. Hence lower signal should be observed for the mismatch probes.

Usage

probePairsPlot(BLData, array = 1)

Arguments

BLData A BeadLevelList object for an Illumina expression array
array Number of the array in BLData that we want QA for

Details

Firstly, the annotation of the control probes found on the BeadLevelList object is retrieved. We then search the annoation for the perfect and mismatch controls (labeled phage_lambda_genome:pm and phage_lambda_genome:mm2). For each perfect match we find the corresponding mismatch control by comparing the sequences and plot the perfect match control next to the mismatch control.

Value

Plot on the current graphical device with the perfect match beads in red and mismatches in purple. The labels on the x-axis show the ID of the controls.

Author(s)

Mark Dunning

See Also

calculateBeadLevelScores


[Package beadarray version 1.10.0 Index]