rtracklayer

R interface to genome browsers and their annotation tracks

Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED and WIG built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.

Author	Michael Lawrence
Maintainer	Michael Lawrence

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("rtracklayer")

Documentation

rtracklayer	PDF	R Script
Reference Manual

Details

biocViews	Annotation , Visualization , DataImport
Depends	R , methods , RCurl
Imports	XML , IRanges , Biostrings , BSgenome
Suggests	humanStemCell , microRNA , genefilter , limma , org.Hs.eg.db
System Requirements
License	Artistic-2.0
URL
Depends On Me
Imports Me
Suggests Me	oneChannelGUI , Ringo
Development History	Bioconductor Changelog

Package Downloads

Package source	rtracklayer_1.4.1.tar.gz
Windows binary	rtracklayer_1.4.1.zip
MacOS X 10.4 (Tiger) binary	rtracklayer_1.4.1.tgz
MacOS X 10.5 (Leopard) binary	rtracklayer_1.4.1.tgz
Package Downloads Report	Downloads Stats