R interface to genome browsers and their annotation tracks

Bioconductor version: 2.8

Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, 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, Vince Carey, Robert Gentleman

Maintainer: Michael Lawrence <michafla at gene.com>

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PDF R Script rtracklayer
PDF   Reference Manual


biocViews Annotation, Visualization, DataImport
Depends R (>= 2.7.0), methods, RCurl (>= 1.4-2)
Imports XML (>= 1.98-0), IRanges(>= 1.9.26), GenomicRanges(>= 1.1.34), Biostrings(>= 2.15.22), BSgenome(>= 1.15.17)
Suggests humanStemCell, microRNA(>= 1.1.1), genefilter, limma, org.Hs.eg.db, BSgenome.Hsapiens.UCSC.hg19
System Requirements
License Artistic-2.0
Depends On Me EatonEtAlChIPseq, GGtools
Imports Me ChromHeatMap, geneLenDataBase, GenomicFeatures, GGtools, R453Plus1Toolbox
Suggests Me GenomicFeatures, GGtools, ind1KG, mosaics, MotIV, oneChannelGUI, PICS, R453Plus1Toolbox, Ringo, rMAT
Version 1.12.5
Since Bioconductor 2.2 (R-2.7)

Package Downloads

Package Source rtracklayer_1.12.5.tar.gz
Windows Binary rtracklayer_1.12.5.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary rtracklayer_1.12.5.tgz
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