AnnotationHubData

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see AnnotationHubData.

Transform public data resources into Bioconductor Data Structures


Bioconductor version: 3.6

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], 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 "3.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("AnnotationHubData")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF
NEWS Text

Details

biocViews DataImport, Software
Version 1.8.1
In Bioconductor since BioC 3.2 (R-3.2) (8.5 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, BiocInstaller, biocViews, AnnotationDbi, Biobase, Biostrings, DBI, GEOquery, GenomeInfoDb, OrganismDbi, RSQLite, rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML, RCurl
System Requirements
URL
See More
Suggests RUnit, knitr, BiocStyle, grasp2db, BiocInstaller
Linking To
Enhances
Depends On Me ExperimentHubData, ProteomicsAnnotationHubData
Imports Me AHEnsDbs
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package AnnotationHubData_1.8.1.tar.gz
Windows Binary AnnotationHubData_1.8.1.zip
Mac OS X 10.11 (El Capitan) AnnotationHubData_1.8.1.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 https://bioconductor.org/packages/AnnotationHubData/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive