AnnotationHubData

DOI: 10.18129/B9.bioc.AnnotationHubData    

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

Transform public data resources into Bioconductor Data Structures

Bioconductor version: 3.8

These recipes convert a wide variety and a growing number of public bioinformatic data sets into easily-used standard Bioconductor data structures.

Author: Martin Morgan [ctb], Marc Carlson [ctb], Dan Tenenbaum [ctb], Sonali Arora [ctb], Paul Shannon [ctb], Lori Shepherd [ctb], Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Installation

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

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

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("AnnotationHubData")

 

HTML	R Script	AnnotationHub: Creating An AnnotationHub Package
HTML		Introduction to AnnotationHubData
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, Software
Version	1.12.0
In Bioconductor since	BioC 3.2 (R-3.2) (3.5 years)
License	Artistic-2.0
Depends	R (>= 3.2.2), methods, utils, S4Vectors(>= 0.7.21), IRanges(>= 2.3.23), GenomicRanges, AnnotationHub(>= 2.9.14)
Imports	GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics, jsonlite, BiocManager, biocViews, AnnotationDbi, Biobase, Biostrings, DBI, GenomeInfoDb(>= 1.15.4), OrganismDbi, RSQLite, rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML, RCurl
LinkingTo
Suggests	RUnit, knitr, BiocStyle, grasp2db, GenomeInfoDbData
SystemRequirements
Enhances
URL
Depends On Me	ExperimentHubData, ProteomicsAnnotationHubData
Imports Me	AHEnsDbs, EuPathDB
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	AnnotationHubData_1.12.0.tar.gz
Windows Binary	AnnotationHubData_1.12.0.zip
Mac OS X 10.11 (El Capitan)	AnnotationHubData_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/AnnotationHubData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/AnnotationHubData
Package Short Url	http://bioconductor.org/packages/AnnotationHubData/
Package Downloads Report	Download Stats