annotation

DOI: 10.18129/B9.bioc.annotation    

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

Genomic Annotation Resources

Bioconductor version: Development (3.13)

Annotation resources make up a significant proportion of the Bioconductor project. And there are also a diverse set of online resources available which are accessed using specific packages. This walkthrough will describe the most popular of these resources and give some high level examples on how to use them.

Author: Marc RJ Carlson <mrjc42 at gmail.com>, Herve Pages <hpages at fredhutch.org>, Sonali Arora <sarora at fredhutch.org>, Valerie Obenchain <valerie.obenchain at roswellpark.org>, Martin Morgan <martin.morgan at roswellpark.org>, Bioconductor Package Maintainer RJ Carlson <maintainer at bioconductor.org>

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

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

Installation

To install this package, start R (version "4.1") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("annotation")

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

Documentation

Details

biocViews AnnotationWorkflow, Workflow
Version 1.15.0
License Artistic-2.0
Depends R (>= 3.3.0), VariantAnnotation, AnnotationHub, Organism.dplyr, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Mmusculus.UCSC.mm10.ensGene, org.Hs.eg.db, org.Mm.eg.db, Homo.sapiens, BSgenome.Hsapiens.UCSC.hg19, biomaRt, BSgenome, TxDb.Athaliana.BioMart.plantsmart22
Imports
LinkingTo
Suggests knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL http://bioconductor.org/help/workflows/annotation/Annotation_Resources/
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
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/annotation
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/annotation
Package Short Url https://bioconductor.org/packages/annotation/
Package Downloads Report Download Stats

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