arrayQualityMetrics

Quality metrics on microarray data sets

Bioconductor version: 2.8

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

Details

biocViews Microarray, QualityControl, OneChannel, TwoChannel, ReportWriting
Depends
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)
URL
Depends On Me
Imports Me
Suggests Me
Version 3.8.0
Since Bioconductor 2.1 (R-2.6)

Package Downloads

Package Source arrayQualityMetrics_3.8.0.tar.gz
Windows Binary arrayQualityMetrics_3.8.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary arrayQualityMetrics_3.8.0.tgz
Package Downloads Report Download Stats

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