This package is for version 3.18 of Bioconductor;
for the stable, up-to-date release version, see
GEOquery.
Get data from NCBI Gene Expression Omnibus (GEO)
Bioconductor version: 3.18
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 [aut, cre]
Maintainer: Sean Davis <seandavi at gmail.com>
Citation (from within R, enter citation("GEOquery")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GEOquery")
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("GEOquery")
Details
Version
2.70.0
In Bioconductor since
BioC 1.8 (R-2.3) (18 years)
License
MIT
Imports
readr (>= 1.3.1), xml2, dplyr, data.table, tidyr, magrittr,
limma, curl, R.utils
System Requirements
See More
Suggests
knitr, rmarkdown,
BiocGenerics, testthat, covr, markdown
Linking To
Enhances
Imports Me
BeadArrayUseCases,
bigmelon,
BioPlex,
ChIPXpress,
crossmeta,
DExMA,
EGAD,
GEOexplorer,
GSE13015,
healthyControlsPresenceChecker,
minfi,
Moonlight2R,
MoonlightR,
phantasus,
recount,
SRAdb
Suggests Me
airway,
antiProfilesData,
AUCell,
autonomics,
CBNplot,
COTAN,
ctsGE,
dearseq,
debCAM,
diffcoexp,
dyebias,
EpiDISH,
EpiMix,
fgsea,
FLAMES,
GCSscore,
GeneExpressionSignature,
GenomicOZone,
GeoTcgaData,
methylclock,
multiClust,
MultiDataSet,
muscData,
omicsPrint,
parathyroidSE,
PCAtools,
phantasusLite,
prostateCancerCamcap,
prostateCancerGrasso,
prostateCancerStockholm,
prostateCancerTaylor,
prostateCancerVarambally,
quantiseqr,
RegEnrich,
RegParallel,
RGSEA,
Rnits,
runibic,
skewr,
spatialHeatmap,
TargetScore,
zFPKM
Links To Me
Package Archives
Follow Installation instructions to use this package in your R session.
Source Repository
git clone https://git.bioconductor.org/packages/GEOquery
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/GEOquery