OmaDB

DOI: 10.18129/B9.bioc.OmaDB    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see OmaDB.

R wrapper for the OMA REST API

Bioconductor version: 3.8

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>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("OmaDB")

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

Documentation

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

browseVignettes("OmaDB")

 

HTML	R Script	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
PDF		Reference Manual
Text		NEWS

Details

biocViews	Annotation, ComparativeGenomics, FunctionalGenomics, FunctionalPrediction, GO, Genetics, Software
Version	1.2.2
In Bioconductor since	BioC 3.7 (R-3.5) (1 year)
License	GPL-2
Depends	R (>= 3.5), httr (>= 1.2.1), plyr (>= 1.8.4)
Imports	utils, ape, Biostrings, GenomicRanges, IRanges, methods, topGO, jsonlite
LinkingTo
Suggests	knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	OmaDB_1.2.2.tar.gz
Windows Binary	OmaDB_1.2.2.zip
Mac OS X 10.11 (El Capitan)	OmaDB_1.2.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/OmaDB
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/OmaDB
Package Short Url	http://bioconductor.org/packages/OmaDB/
Package Downloads Report	Download Stats