GEOmetadb

A compilation of metadata from NCBI GEO

Bioconductor version: Release (2.7)

The NCBI Gene Expression Omnibus (GEO) represents the largest public repository of microarray data. However, finding data of interest can be challenging using current tools. GEOmetadb is an attempt to make access to the metadata associated with samples, platforms, and datasets much more feasible. This is accomplished by parsing all the NCBI GEO metadata into a SQLite database that can be stored and queried locally. GEOmetadb is simply a thin wrapper around the SQLite database along with associated documentation. Finally, the SQLite database is updated regularly as new data is added to GEO and can be downloaded at will for the most up-to-date metadata. GEOmetadb paper: http://bioinformatics.oxfordjournals.org/cgi/content/short/24/23/2798

Author: Jack Zhu and Sean Davis

Maintainer: Jack Zhu

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("GEOmetadb")    

Documentation

PDF	R Script	GEOmetadb
PDF		GEOmetadb_diagram.pdf

Reference Manual

Details

biocViews	Infrastructure
Depends	GEOquery, RSQLite
Imports
Suggests
System Requirements
License	Artistic-2.0
URL	http://gbnci.abcc.ncifcrf.gov/geo/
Depends On Me
Imports Me
Suggests Me
Version	1.10.0

Package Downloads

Package Source	GEOmetadb_1.10.0.tar.gz
Windows Binary	GEOmetadb_1.10.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	GEOmetadb_1.10.0.tgz
Package Downloads Report	Download Stats