arrayQualityMetrics

Quality metrics on microarray data sets

Bioconductor version: 2.7

This package generates a quality metrics report on ExpressionSet, NChannelSet, AffyBatch or BeadLevelList objects containing microarray data with one or two channels.

Author: Audrey Kauffmann, Wolfgang Huber

Maintainer: Audrey Kauffmann <kauffmann at bergonie.org>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("arrayQualityMetrics")

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

    citation("arrayQualityMetrics")

Documentation

PDF R Script arrayQualityMetrics modules
PDF R Script Quality assessment with arrayQualityMetrics
PDF   Reference Manual

Details

biocViews Microarray, QualityControl, OneChannel, TwoChannel, ReportWriting
Depends affyPLM, vsn
Imports Biobase, RColorBrewer, affy, beadarray, genefilter, grDevices, graphics, hwriter, lattice, latticeExtra, limma, marray, methods, RJSONIO, simpleaffy, stats, stats4, SVGAnnotation (>= 0.7.2), utils, XML
Suggests ALLMLL, CCl4
System Requirements
License LGPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me ArrayExpress
Version 3.2.4
Since Bioconductor 2.1 (R-2.6)

Package Downloads

Package Source arrayQualityMetrics_3.2.4.tar.gz
Windows Binary arrayQualityMetrics_3.2.4.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary arrayQualityMetrics_3.2.4.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