EuPathDB

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see EuPathDB.

Provides access to pathogen annotation resources available on EuPathDB databases

Bioconductor version: 3.21

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 "4.5") 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

Need some help? Ask on the Bioconductor Support site!

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

System Requirements

URL https://github.com/khughitt/EuPathDB

Bug Reports https://github.com/khughitt/EuPathDB/issues

Suggests dplyr, knitr, BiocStyle, rmarkdown, jsonlite

Linking To

Enhances

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 (x86_64)

macOS Binary (x86_64)

macOS Binary (arm64)

Package Short Url https://bioconductor.org/packages/EuPathDB/

Package Downloads Report Download Stats