BgeeDB

DOI:10.18129/B9.bioc.BgeeDB

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, seeBgeeDB.

Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology

Bioconductor version: 3.14

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 Roux , Andrea Komljenovic , Frederic Bastian

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("BgeeDB")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("BgeeDB")

HTML	R Script	BgeeDB, an R package for retrieval of curated expression datasets and for gene list enrichment tests
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DataImport,GO,GeneExpression,GeneSetEnrichment,Microarray,Sequencing,Software
Version	2.20.1
In Bioconductor since	BioC 3.3 (R-3.3) (6 years)
License	GPL-3 + fileLICENSE
Depends	R (>= 3.6.0),topGO,tidyr
Imports	R.utils,data.table,curl,RCurl,digest, methods, stats, utils,dplyr,RSQLite,graph,Biobase
LinkingTo
Suggests	knitr,BiocStyle,testthat,rmarkdown,markdown
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
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	BgeeDB_2.20.1.tar.gz
Windows Binary	BgeeDB_2.20.1.zip
macOS 10.13 (High Sierra)	BgeeDB_2.20.1.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	//www.andersvercelli.com/packages/BgeeDB/
Package Downloads Report	Download Stats