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 1.12.1 Index]