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annotation

Genomic Annotation Resources

Bioconductor version: Release (3.17)

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 [aut], Herve Pages [aut], Sonali Arora [aut], Valerie Obenchain [aut], Martin Morgan [aut], Bioconductor Package Maintainer [cre]

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

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

Installation

To install this package, start R (version "4.3") and enter: 

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

BiocManager::install("annotation")

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("annotation")
Annotating Genomic Ranges HTML R Script
Genomic Annotation Resources HTML R Script

Details

biocViews AnnotationWorkflow, Workflow
Version 1.24.1
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
Linking To
Suggests knitr, rmarkdown, BiocStyle
System Requirements
Enhances
URL http://bioconductor.org/help/workflows/annotation/Annotation_Resources/
See More
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 annotation_1.24.1.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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