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

 

   

Get data from NCBI Gene Expression Omnibus (GEO)

Bioconductor version: Release (3.3)

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

HTML R Script Using GEOquery
PDF   Reference Manual

Details

biocViews DataImport, Microarray, OneChannel, SAGE, Software, TwoChannel
Version 2.38.4
In Bioconductor since BioC 1.8 (R-2.3) (10.5 years)
License GPL-2
Depends methods, Biobase
Imports XML, RCurl, httr
LinkingTo
Suggests limma, knitr, rmarkdown, RUnit, BiocGenerics
SystemRequirements
Enhances
URL https://github.com/seandavi/GEOquery
BugReports https://github.com/seandavi/GEOquery/issues/new
Depends On Me DrugVsDisease, dyebiasexamples, GEOmetadb, GSE62944, SCAN.UPC
Imports Me AnnotationHubData, BeadArrayUseCases, ChIPXpress, EGAD, minfi, SRAdb
Suggests Me airway, antiProfilesData, dyebias, ELBOW, GeneExpressionSignature, multiClust, parathyroidSE, PGSEA, prostateCancerCamcap, prostateCancerGrasso, prostateCancerStockholm, prostateCancerTaylor, prostateCancerVarambally, RGSEA, RnBeads, Rnits, skewr, TargetScore
Build Report  

Package Archives

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

Package Source GEOquery_2.38.4.tar.gz
Windows Binary GEOquery_2.38.4.zip
Mac OS X 10.9 (Mavericks) GEOquery_2.38.4.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/GEOquery/tree/release-3.3
Package Short Url http://bioconductor.org/packages/GEOquery/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: