AtlasRDF
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.6 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see AtlasRDF.
Gene Expression Atlas query and gene set enrichment package.
Bioconductor version: 3.6
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: Simon Jupp <jupp at ebi.ac.uk>
citation("AtlasRDF")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AtlasRDF")
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("AtlasRDF")| An introduction to the AtlasRDF-R package | R Script | |
| Reference Manual |
Details
| biocViews | DataImport, DataRepresentation, DifferentialExpression, GeneExpression, GeneSetEnrichment, Microarray, Software |
| Version | 1.11.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (10 years) |
| License | Apache License 2.0 |
| Depends | R (>= 2.10), hash, SPARQL, methods |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AtlasRDF_1.11.0.tar.gz |
| Windows Binary | |
| Mac OS X 10.11 (El Capitan) | |
| Source Repository | git clone https://git.bioconductor.org/packages/AtlasRDF |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AtlasRDF |
| Package Short Url | https://bioconductor.org/packages/AtlasRDF/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |