To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("AnnotationHub")
In most cases, you don't need to download the package archive at all.
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Bioconductor version: Release (3.4)
This package provides a client for the Bioconductor AnnotationHub web resource. The AnnotationHub web resource provides a central location where genomic files (e.g., VCF, bed, wig) and other resources from standard locations (e.g., UCSC, Ensembl) can be discovered. The resource includes metadata about each resource, e.g., a textual description, tags, and date of modification. The client creates and manages a local cache of files retrieved by the user, helping with quick and reproducible access.
Author: Martin Morgan [cre], Marc Carlson [ctb], Dan Tenenbaum [ctb], Sonali Arora [ctb]
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation (from within R,
enter citation("AnnotationHub")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("AnnotationHub")
HTML | R Script | AnnotationHub: Access the AnnotationHub Web Service |
HTML | R Script | AnnotationHub: AnnotationHub HOW TO's |
Reference Manual | ||
Text | NEWS |
biocViews | DataImport, GUI, Infrastructure, Software, ThirdPartyClient |
Version | 2.6.5 |
In Bioconductor since | BioC 2.12 (R-3.0) (4 years) |
License | Artistic-2.0 |
Depends | BiocGenerics(>= 0.15.10) |
Imports | utils, methods, grDevices, RSQLite, BiocInstaller, AnnotationDbi, S4Vectors, interactiveDisplayBase, httr, yaml |
LinkingTo | |
Suggests | IRanges, GenomicRanges, GenomeInfoDb, VariantAnnotation, Rsamtools, rtracklayer, BiocStyle, knitr, AnnotationForge, rBiopaxParser, RUnit, GenomicFeatures, MSnbase, mzR, Biostrings, SummarizedExperiment |
SystemRequirements | |
Enhances | AnnotationHubData |
URL | |
Depends On Me | AnnotationHubData, curatedMetagenomicData, ExperimentHub, ProteomicsAnnotationHubData, RefNet |
Imports Me | alpineData, alternativeSplicingEvents.hg19, annotatr, ensembldb, grasp2db, gwascat, psichomics, pwOmics |
Suggests Me | Chicago, CINdex, clusterProfiler, DNAshapeR, dupRadar, GenomicRanges, GOSemSim, MSnbase, OrganismDbi, Pbase, VariantAnnotation |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | AnnotationHub_2.6.5.tar.gz |
Windows Binary | AnnotationHub_2.6.5.zip |
Mac OS X 10.9 (Mavericks) | AnnotationHub_2.6.5.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/AnnotationHub/tree/release-3.4 |
Package Short Url | http://bioconductor.org/packages/AnnotationHub/ |
Package Downloads Report | Download Stats |
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