DOI: 10.18129/B9.bioc.ArrayTools    

This is the development version of ArrayTools; for the stable release version, see ArrayTools.

geneChip Analysis Package

Bioconductor version: Development (3.8)

This package is designed to provide solutions for quality assessment and to detect differentially expressed genes for the Affymetrix GeneChips, including both 3' -arrays and gene 1.0-ST arrays. The package generates comprehensive analysis reports in HTML format. Hyperlinks on the report page will lead to a series of QC plots, processed data, and differentially expressed gene lists. Differentially expressed genes are reported in tabular format with annotations hyperlinked to online biological databases.

Author: Xiwei Wu, Arthur Li

Maintainer: Arthur Li <xueli at>

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


To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly=TRUE))
BiocManager::install("ArrayTools", version = "devel")


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



PDF R Script 1. Primer
PDF   Reference Manual


biocViews Annotation, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, StatisticalMethod, Visualization
Version 1.41.0
In Bioconductor since BioC 2.3 (R-2.8) (10 years)
License LGPL (>= 2.0)
Depends R (>= 2.7.0), affy(>= 1.23.4), Biobase(>= 2.5.5), methods
Imports affy, Biobase, graphics, grDevices, limma, methods, stats, utils, xtable
Suggests simpleaffy, R2HTML, affydata, affyPLM, genefilter, annaffy, gcrma, hugene10sttranscriptcluster.db
Depends On Me
Imports Me
Suggests Me
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Source Package ArrayTools_1.41.0.tar.gz
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Mac OS X 10.11 (El Capitan) ArrayTools_1.41.0.tgz
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