EuPathDB

Provides access to pathogen annotation resources available on EuPathDB databases

Bioconductor version: Release (3.17)

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>

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

Installation

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

if (!require("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")

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

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
Linking To
Suggests	dplyr, knitr, BiocStyle, rmarkdown, jsonlite
System Requirements
Enhances
URL	https://github.com/khughitt/EuPathDB
Bug Reports	https://github.com/khughitt/EuPathDB/issues

Depends On Me
Imports Me
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Package Archives

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

Source Package	EuPathDB_1.0.1.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Package Short Url	https://bioconductor.org/packages/EuPathDB/
Package Downloads Report	Download Stats