aqm.prepaffy {arrayQualityMetrics}R Documentation

Preparation of Affymetrix experiments for RLE and NUSE.

Description

aqm.prepaffy performs data preprocessing on AffyBatch and formats the output for aqm.rle and aqm.nuse usage.

Usage

 aqm.prepaffy(expressionset, sN) 

Arguments

expressionset is an object of class AffyBatch
sN are the sample names to be written on the plots

Value

A preprocessed affy object of class aqmobj.prepaffy.

Author(s)

Audrey Kauffmann <audrey@ebi.ac.uk>

See Also

aqm.rle, aqm.nuse

Examples

    library(ALLMLL)
    data(MLL.A)
    MLLaffyprep = aqm.prepaffy(MLL.A, sampleNames(MLL.A))
    nuse = aqm.nuse(MLLaffyprep)
    class(nuse)
    aqm.plot(nuse)

[Package arrayQualityMetrics version 2.2.3 Index]