To install this package, start R and enter:

## try http if https is not available

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



Genome Intervals and Read Alignments for Functional Exploration

Bioconductor version: Release (3.1)

The package 'girafe' deals with the genome-level representation of aligned reads from next-generation sequencing data. It contains an object class for enabling a detailed description of genome intervals with aligned reads and functions for comparing, visualising, exporting and working with such intervals and the aligned reads. As such, the package interacts with and provides a link between the packages ShortRead, IRanges and genomeIntervals.

Author: Joern Toedling, with contributions from Constance Ciaudo, Olivier Voinnet, Edith Heard, Emmanuel Barillot, and Wolfgang Huber

Maintainer: J. Toedling <jtoedling at>

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


To install this package, start R and enter:

## try http if https is not available


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



PDF R Script Genome intervals and read alignments for functional exploration
PDF   Reference Manual
Text   NEWS


biocViews Sequencing, Software
Version 1.20.0
In Bioconductor since BioC 2.6 (R-2.11) (5.5 years)
License Artistic-2.0
Depends R (>= 2.10.0), methods, BiocGenerics(>= 0.13.8), S4Vectors, Rsamtools, intervals (>= 0.13.1), ShortRead(>= 1.3.21), genomeIntervals(>= 1.7.3), grid
Imports methods, Biobase, Biostrings, graphics, grDevices, stats, utils, IRanges(>= 1.3.53)
Suggests MASS,, RColorBrewer
Enhances genomeIntervals
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source girafe_1.20.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) girafe_1.20.0.tgz
Mac OS X 10.9 (Mavericks) girafe_1.20.0.tgz
Subversion source (username/password: readonly)
Git source
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center