DOI: 10.18129/B9.bioc.OrganismDbi  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see OrganismDbi.

Software to enable the smooth interfacing of different database packages

Bioconductor version: 3.17

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 [aut], Hervé Pagès [aut], Martin Morgan [aut], Valerie Obenchain [aut], Aliyu Atiku Mustapha [ctb] (Converted 'OrganismDbi' vignette from Sweave to RMarkdown / HTML.), Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at>

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


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


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


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



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


biocViews Annotation, Infrastructure, Software
Version 1.42.0
In Bioconductor since BioC 2.11 (R-2.15) (11 years)
License Artistic-2.0
Depends R (>= 2.14.0), methods, BiocGenerics(>= 0.15.10), AnnotationDbi(>= 1.33.15), GenomicFeatures(>= 1.39.4)
Imports Biobase, BiocManager, GenomicRanges(>= 1.31.13), graph, IRanges, RBGL, DBI, S4Vectors(>= 0.9.25), stats
Suggests Homo.sapiens, Rattus.norvegicus, BSgenome.Hsapiens.UCSC.hg19, AnnotationHub, FDb.UCSC.tRNAs, mirbase.db, rtracklayer, biomaRt, RUnit, RMariaDB, BiocStyle, knitr
Depends On Me Homo.sapiens, Mus.musculus, Rattus.norvegicus
Imports Me AnnotationHubData, epivizrData, ggbio, uncoverappLib
Suggests Me ChIPpeakAnno, epivizrStandalone
Links To Me
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Source Package OrganismDbi_1.42.0.tar.gz
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macOS Binary (arm64) OrganismDbi_1.42.0.tgz
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