BgeeDB

DOI: 10.18129/B9.bioc.BgeeDB    

Annotation and gene expression data retrieval from Bgee database

Bioconductor version: Release (3.7)

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>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("BgeeDB")

Documentation

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

browseVignettes("BgeeDB")

 

HTML R Script Vignette Title
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews DataImport, GO, GeneExpression, GeneSetEnrichment, Microarray, Sequencing, Software
Version 2.6.2
In Bioconductor since BioC 3.3 (R-3.3) (2 years)
License GPL-3
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 https://github.com/BgeeDB/BgeeDB_R
BugReports https://github.com/BgeeDB/BgeeDB_R/issues
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_2.6.2.tar.gz
Windows Binary BgeeDB_2.6.2.zip
Mac OS X 10.11 (El Capitan) BgeeDB_2.6.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/BgeeDB
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BgeeDB
Package Short Url http://bioconductor.org/packages/BgeeDB/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive

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