OrganismDbi

DOI: 10.18129/B9.bioc.OrganismDbi    

Software to enable the smooth interfacing of different database packages

Bioconductor version: Release (3.7)

The package enables a simple unified interface to several annotation packages each of which has its own schema by taking advantage of the fact that each of these packages implements a select methods.

Author: Marc Carlson, Hervé Pagès, Martin Morgan, Valerie Obenchain

Maintainer: Biocore Data Team <maintainer at bioconductor.org>

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

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("OrganismDbi")

Documentation

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

browseVignettes("OrganismDbi")

 

PDF R Script OrganismDbi: A meta framework for Annotation Packages
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, Infrastructure, Software
Version 1.22.0
In Bioconductor since BioC 2.11 (R-2.15) (6 years)
License Artistic-2.0
Depends R (>= 2.14.0), methods, BiocGenerics(>= 0.15.10), AnnotationDbi(>= 1.33.15), GenomicFeatures(>= 1.23.31)
Imports Biobase, BiocInstaller, GenomicRanges(>= 1.31.13), graph, IRanges, RBGL, DBI, S4Vectors(>= 0.9.25), stats
LinkingTo
Suggests Homo.sapiens, Rattus.norvegicus, BSgenome.Hsapiens.UCSC.hg19, AnnotationHub, FDb.UCSC.tRNAs, rtracklayer, biomaRt, RUnit, RMariaDB
SystemRequirements
Enhances
URL
Depends On Me Homo.sapiens, Mus.musculus, Rattus.norvegicus
Imports Me AnnotationHubData, epivizrData, ggbio
Suggests Me ChIPpeakAnno, epivizrStandalone
Links To Me
Build Report  

Package Archives

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

Source Package OrganismDbi_1.22.0.tar.gz
Windows Binary OrganismDbi_1.22.0.zip
Mac OS X 10.11 (El Capitan) OrganismDbi_1.22.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/OrganismDbi
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/OrganismDbi
Package Short Url http://bioconductor.org/packages/OrganismDbi/
Package Downloads Report Download Stats

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