To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("GEOquery")

In most cases, you don't need to download the package archive at all.

GEOquery

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see GEOquery.

Get data from NCBI Gene Expression Omnibus (GEO)

Bioconductor version: 3.0

The NCBI Gene Expression Omnibus (GEO) is a public repository of microarray data. Given the rich and varied nature of this resource, it is only natural to want to apply BioConductor tools to these data. GEOquery is the bridge between GEO and BioConductor.

Author: Sean Davis <sdavis2 at mail.nih.gov>

Maintainer: Sean Davis <sdavis2 at mail.nih.gov>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("GEOquery")

Documentation

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

browseVignettes("GEOquery")

PDF	R Script	GEOquery.pdf
HTML	R Script	Using GEOquery
PDF		Reference Manual

Details

biocViews	DataImport, Microarray, OneChannel, SAGE, Software, TwoChannel
Version	2.32.0
In Bioconductor since	BioC 1.8 (R-2.3) (10 years)
License	GPL-2
Depends	methods, Biobase
Imports	XML, RCurl
LinkingTo
Suggests	limma, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/seandavi/GEOquery
Depends On Me	DrugVsDisease, dyebiasexamples, GEOmetadb, SCAN.UPC
Imports Me	BeadArrayUseCases, ChIPXpress, SRAdb
Suggests Me	airway, antiProfilesData, dyebias, ELBOW, GeneExpressionSignature, parathyroid, parathyroidSE, PGSEA, RGSEA, Rnits, TargetScore
Build Report

Package Archives

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

Package Source	GEOquery_2.32.0.tar.gz
Windows Binary	GEOquery_2.32.0.zip
Mac OS X 10.6 (Snow Leopard)	GEOquery_2.32.0.tgz
Mac OS X 10.9 (Mavericks)	GEOquery_2.32.0.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/GEOquery/tree/release-3.0
Package Short Url	http://bioconductor.org/packages/GEOquery/
Package Downloads Report	Download Stats

Documentation »

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