Quality metrics on microarray data sets

Bioconductor version: 2.9

This package generates microarray quality metrics reports for data in Bioconductor microarray data containers (ExpressionSet, NChannelSet, AffyBatch). Report contain both general and platform-specific sections. Both one and two color array platforms are supported.

Author: Audrey Kauffmann, Wolfgang Huber

Maintainer: Audrey Kauffmann <akauffmann.bioinfo at>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



PDF R Script Advanced topics: Customizing arrayQualityMetrics reports and programmatic processing of the output
PDF R Script Introduction: microarray quality assessment with arrayQualityMetrics
PDF   Reference Manual


biocViews Microarray, QualityControl, OneChannel, TwoChannel, ReportWriting
Imports affy, affyPLM(>= 1.27.3), beadarray, Biobase, Cairo (>= 1.4-6), genefilter, graphics, grDevices, grid, Hmisc, hwriter, lattice, latticeExtra, limma, methods, RColorBrewer, setRNG, simpleaffy, stats, SVGAnnotation (>= 0.9-0), utils, vsn, XML
Suggests ALLMLL, CCl4
System Requirements
License LGPL (>= 2)
Depends On Me
Imports Me
Suggests Me
Version 3.10.0
Since Bioconductor 2.1 (R-2.6)

Package Downloads

Package Source arrayQualityMetrics_3.10.0.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) binary arrayQualityMetrics_3.10.0.tgz
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:


Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center