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>
citation("EuPathDB")):
Installation
To install this package, start R (version "3.6") 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 | ||
| 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 |
| System Requirements | |
| URL | https://github.com/khughitt/EuPathDB |
| Bug Reports | https://github.com/khughitt/EuPathDB/issues |
See More
| 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 | |
| Mac OS X 10.11 (El Capitan) | |
| Package Short Url | https://bioconductor.org/packages/EuPathDB/ |
| Package Downloads Report | Download Stats |