EuPathDB

DOI: 10.18129/B9.bioc.EuPathDB    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see EuPathDB.

Provides access to pathogen annotation resources available on EuPathDB databases

Bioconductor version: 3.9

Brings together annotation resources from the various EuPathDB databases (PlasmoDB, ToxoDB, TriTrypDB, etc.) and makes them available in R using the AnnotationHub framework.

Author: Keith Hughitt [aut, cre]

Maintainer: Keith Hughitt <keith.hughitt at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("EuPathDB")

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("EuPathDB")

 

HTML	R Script	Accessing EuPathDB Resources using AnnotationHub
PDF		Reference Manual
Text		NEWS

Details

biocViews	AnnotationData, AnnotationHub, DataImport, EuPathDB
Version	1.0.1
License	Artistic-2.0
Depends	R (>= 3.5), Biobase, GenomicRanges, GenomeInfoDbData, AnnotationHub(>= 2.13.8)
Imports	AnnotationHubData, Biostrings, BiocManager, utils
LinkingTo
Suggests	dplyr, knitr, BiocStyle, rmarkdown, jsonlite
SystemRequirements
Enhances
URL	https://github.com/khughitt/EuPathDB
BugReports	https://github.com/khughitt/EuPathDB/issues
Depends On Me
Imports Me
Suggests Me
Links To Me

Package Archives

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

Source Package	EuPathDB_1.0.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Package Short Url	https://bioconductor.org/packages/EuPathDB/
Package Downloads Report	Download Stats