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arrayQualityMetrics

Quality metrics report for microarray data sets

Bioconductor version: Release (3.17)

This package generates microarray quality metrics reports for data in Bioconductor microarray data containers (ExpressionSet, NChannelSet, AffyBatch). One and two color array platforms are supported.

Author: Audrey Kauffmann, Wolfgang Huber

Maintainer: Mike Smith <mike.smith at embl.de>

Citation (from within R, enter citation("arrayQualityMetrics")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("arrayQualityMetrics")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("arrayQualityMetrics")
Advanced topics: Customizing arrayQualityMetrics reports and programmatic processing of the output PDF R Script
Introduction: microarray quality assessment with arrayQualityMetrics PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Microarray, OneChannel, QualityControl, ReportWriting, Software, TwoChannel
Version 3.56.0
In Bioconductor since BioC 2.1 (R-2.6) (16 years)
License LGPL (>= 2)
Depends
Imports affy, affyPLM(>= 1.27.3), beadarray, Biobase, genefilter, graphics, grDevices, grid, gridSVG (>= 1.4-3), Hmisc, hwriter, lattice, latticeExtra, limma, methods, RColorBrewer, setRNG, stats, utils, vsn(>= 3.23.3), XML, svglite
Linking To
Suggests ALLMLL, CCl4, BiocStyle, knitr
System Requirements
Enhances
URL
Bug Reports https://github.com/grimbough/arrayQualityMetrics/issues
See More
Depends On Me maEndToEnd
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package arrayQualityMetrics_3.56.0.tar.gz
Windows Binary arrayQualityMetrics_3.56.0.zip
macOS Binary (x86_64) arrayQualityMetrics_3.56.0.tgz
macOS Binary (arm64) arrayQualityMetrics_3.56.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/arrayQualityMetrics
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/arrayQualityMetrics
Bioc Package Browser https://code.bioconductor.org/browse/arrayQualityMetrics/
Package Short Url https://bioconductor.org/packages/arrayQualityMetrics/
Package Downloads Report Download Stats