arrayQualityMetrics
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see arrayQualityMetrics.
Quality metrics report for microarray data sets
Bioconductor version: 3.10
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("arrayQualityMetrics")):
Installation
To install this package, start R (version "3.6") 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 | R Script | |
| Introduction: microarray quality assessment with arrayQualityMetrics | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Microarray, OneChannel, QualityControl, ReportWriting, Software, TwoChannel |
| Version | 3.42.0 |
| In Bioconductor since | BioC 2.1 (R-2.6) (16.5 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 |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/grimbough/arrayQualityMetrics/issues |
See More
| Suggests | ALLMLL, CCl4, BiocStyle, knitr |
| Linking To | |
| Enhances | |
| Depends On Me | maEndToEnd |
| Imports Me | EGAD, KnowSeq |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | arrayQualityMetrics_3.42.0.tar.gz |
| Windows Binary | arrayQualityMetrics_3.42.0.zip |
| Mac OS X 10.11 (El Capitan) | arrayQualityMetrics_3.42.0.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 |
| Old Source Packages for BioC 3.10 | Source Archive |