Workflow Package: annotation

Genomic Annotation Resources

Bioconductor version: Release (3.7)

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 and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("annotation")

Documentation

To view available workflows for the version of this package installed in your system, start R and enter:

browseVignettes("annotation")

 

HTML R Script Annotating Genomic Ranges
HTML R Script Genomic Annotation Resources

Details

biocViews AnnotationWorkflow, Workflow
Version 1.2.0
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
Build Report  

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