To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("AtlasRDF")

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

AtlasRDF

Gene Expression Atlas query and gene set enrichment package.

Bioconductor version: Release (3.0)

Query the Gene Expression Atlas RDF data at the European Bioinformatics Institute using genes, experimental factors (such as disease, cell type, compound treatments), pathways and proteins. Also contains a function to perform an enrichment of your gene list across Experimental Factor Ontology (EFO) using the Atlas background set.

Author: James Malone, Simon Jupp, Maryam Soleimani

Maintainer: James Malone <malone at ebi.ac.uk>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("AtlasRDF")

Documentation

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

browseVignettes("AtlasRDF")

 

PDF R Script An introduction to the AtlasRDF-R package
PDF   Reference Manual

Details

biocViews DataImport, DataRepresentation, DifferentialExpression, GeneExpression, GeneSetEnrichment, Microarray, Software
Version 1.2.0
In Bioconductor since BioC 2.14 (R-3.1)
License Apache License 2.0
Depends R (>= 2.10), hash, SPARQL, methods
Imports
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source AtlasRDF_1.2.0.tar.gz
Windows Binary AtlasRDF_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) AtlasRDF_1.2.0.tgz
Mac OS X 10.9 (Mavericks) AtlasRDF_1.2.0.tgz
Browse/checkout source (username/password: readonly)
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