To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

annmap

 

   

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

Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.

Bioconductor version: Development (3.4)

annmap provides annotation mappings for Affymetrix exon arrays and coordinate based queries to support deep sequencing data analysis. Database access is hidden behind the API which provides a set of functions such as genesInRange(), geneToExon(), exonDetails(), etc. Functions to plot gene architecture and BAM file data are also provided. Underlying data are from Ensembl.

Author: Tim Yates <Tim.Yates at cruk.manchester.ac.uk>

Maintainer: Chris Wirth <Christopher.Wirth at cruk.manchester.ac.uk>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("annmap")

 

PDF annmap installation instruction
PDF annmap primer
PDF The Annmap Cookbook
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, Microarray, OneChannel, ReportWriting, Software, Transcription, Visualization
Version 1.15.0
In Bioconductor since BioC 2.11 (R-2.15) (4 years)
License GPL-2
Depends R (>= 2.15.0), methods, GenomicRanges
Imports DBI, RMySQL (>= 0.6-0), digest, Biobase, grid, lattice, Rsamtools, genefilter, IRanges, BiocGenerics
LinkingTo
Suggests RUnit, rjson, Gviz
SystemRequirements
Enhances
URL http://annmap.cruk.manchester.ac.uk
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source annmap_1.15.0.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks) annmap_1.15.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/annmap
Package Short Url http://bioconductor.org/packages/annmap/
Package Downloads Report Download Stats

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