ArrayTools (original) (raw)
This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, seeArrayTools.
geneChip Analysis Package
Bioconductor version: 2.12
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
Citation (from within R, enter citation("ArrayTools")):
Installation
To install this package, start R and enter:
try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R") biocLite("ArrayTools")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ArrayTools")
Details
| biocViews | Annotation, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, Statistics, Visualization |
|---|---|
| Version | 1.20.0 |
| In Bioconductor since | BioC 2.3 (R-2.8) (7.5 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 |
| LinkingTo | |
| Suggests | simpleaffy, R2HTML, affydata, affyPLM, genefilter, annaffy, gcrma, hugene10sttranscriptcluster.db |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ArrayTools_1.20.0.tar.gz |
|---|---|
| Windows Binary | ArrayTools_1.20.0.zip |
| Mac OS X 10.6 (Snow Leopard) | ArrayTools_1.20.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/ArrayTools/tree/release-2.12 |
| Package Short Url | http://bioconductor.org/packages/ArrayTools/ |
| Package Downloads Report | Download Stats |