AnnotationHubData

DOI: 10.18129/B9.bioc.AnnotationHubData    

This is the development version of AnnotationHubData; for the stable release version, see AnnotationHubData.

Transform public data resources into Bioconductor Data Structures

Bioconductor version: Development (3.9)

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>

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

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("AnnotationHubData", version = "3.9")

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 1.13.1
In Bioconductor since BioC 3.2 (R-3.2) (3 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_1.13.1.tar.gz
Windows Binary AnnotationHubData_1.13.1.zip
Mac OS X 10.11 (El Capitan) AnnotationHubData_1.13.1.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: