BgeeDB

DOI: 10.18129/B9.bioc.BgeeDB    

Annotation and gene expression data retrieval from Bgee database

Bioconductor version: Release (3.6)

A package for the annotation and gene expression data download from Bgee database, and TopAnat analysis: GO-like enrichment of anatomical terms, mapped to genes by expression patterns.

Author: Andrea Komljenovic [aut, cre], Julien Roux [aut, cre]

Maintainer: Julien Wollbrett <julien.wollbrett at unil.ch>, Julien Roux <julien.roux at unibas.ch>, Andrea Komljenovic <andreakomljenovic at gmail.com>, Frederic Bastian <bgee at sib.swiss>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("BgeeDB")

Documentation

HTML	R Script	Vignette Title
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, GO, GeneExpression, GeneSetEnrichment, Microarray, Sequencing, Software
Version	2.5.0
In Bioconductor since	BioC 3.3 (R-3.3) (2 years)
License	GPL-2
Depends	R (>= 3.3.0), topGO, tidyr
Imports	data.table, RCurl, digest, methods, stats, utils, dplyr, graph, Biobase
LinkingTo
Suggests	knitr, BiocStyle, testthat, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	psygenet2r, RITAN
Suggests Me
Build Report

Package Archives

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

Source Package	BgeeDB_2.5.0.tar.gz
Windows Binary	BgeeDB_2.5.0.zip
Mac OS X 10.11 (El Capitan)	BgeeDB_2.5.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BgeeDB
Package Short Url	http://bioconductor.org/packages/BgeeDB/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive