OmaDB

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see OmaDB.

R wrapper for the OMA REST API

Bioconductor version: 3.11

A package for the orthology prediction data download from OMA database.

Author: Klara Kaleb

Maintainer: Klara Kaleb <klara.kaleb18 at ic.ac.uk>, Adrian Altenhoff <adrian.altenhoff at inf.ethz.ch>

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

To install this package, start R (version "4.0") and enter:


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

BiocManager::install("OmaDB")

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:

browseVignettes("OmaDB")

Exploring Hierarchical orthologous groups with OmaDB	HTML	R Script
Exploring Taxonomic trees with OmaDB	HTML	R Script
Get started with OmaDB	HTML	R Script
Sequence Mapping with OmaDB	HTML	R Script
Reference Manual	PDF
NEWS	Text

biocViews	Annotation, ComparativeGenomics, FunctionalGenomics, FunctionalPrediction, GO, Genetics, Software
Version	2.4.0
In Bioconductor since	BioC 3.7 (R-3.5) (6 years)
License	GPL-3
Depends	R (>= 3.5), httr (>= 1.2.1), plyr (>= 1.8.4)
Imports	utils, ape, Biostrings, GenomicRanges, IRanges, methods, topGO, jsonlite
System Requirements
URL	https://github.com/DessimozLab/OmaDB
Bug Reports	https://github.com/DessimozLab/OmaDB/issues

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

Source Package	OmaDB_2.4.0.tar.gz
Windows Binary	OmaDB_2.4.0.zip
macOS 10.13 (High Sierra)	OmaDB_2.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/OmaDB
Source Repository (Developer Access)	git clone [email protected]:packages/OmaDB
Bioc Package Browser	https://code.bioconductor.org/browse/OmaDB/
Package Short Url	https://bioconductor.org/packages/OmaDB/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.11	Source Archive