To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R") biocLite("GEOmetadb")
In most cases, you don't need to download the package archive at all.
Bioconductor version: 2.14
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 <zhujack at mail.nih.gov>
Citation (from within R,
enter citation("GEOmetadb")
):
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R") biocLite("GEOmetadb")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GEOmetadb")
R Script | GEOmetadb | |
Reference Manual |
biocViews | Infrastructure, Software |
Version | 1.24.0 |
In Bioconductor since | BioC 2.2 (R-2.7) |
License | Artistic-2.0 |
Depends | GEOquery, RSQLite |
Imports | |
Suggests | |
System Requirements | |
URL | http://gbnci.abcc.ncifcrf.gov/geo/ |
Depends On Me | |
Imports Me | |
Suggests Me | antiProfilesData |
Follow Installation instructions to use this package in your R session.
Package Source | GEOmetadb_1.24.0.tar.gz |
Windows Binary | GEOmetadb_1.24.0.zip (32- & 64-bit) |
Mac OS X 10.6 (Snow Leopard) | GEOmetadb_1.24.0.tgz |
Mac OS X 10.9 (Mavericks) | GEOmetadb_1.24.0.tgz |
Browse/checkout source | (username/password: readonly) |
Package Downloads Report | Download Stats |
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