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

GenomeGraphs

Plotting genomic information from Ensembl

Bioconductor version: 2.13

Genomic data analyses requires integrated visualization of known genomic information and new experimental data. GenomeGraphs uses the biomaRt package to perform live annotation queries to Ensembl and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data. Another strength of GenomeGraphs is to plot different data types such as array CGH, gene expression, sequencing and other data, together in one plot using the same genome coordinate system.

Author: Steffen Durinck <sdurinck at gmail.com>, James Bullard <bullard at berkeley.edu>

Maintainer: Steffen Durinck <sdurinck at gmail.com>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("GenomeGraphs")

 

PDF	R Script	The GenomeGraphs users guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	Microarray, Software, Visualization
Version	1.22.0
In Bioconductor since	BioC 2.2 (R-2.7)
License	Artistic-2.0
Depends	R (>= 2.10), methods, biomaRt, grid
Imports
Suggests
System Requirements
URL
Depends On Me	Genominator, waveTiling
Imports Me
Suggests Me	leeBamViews, oneChannelGUI, rMAT, triplex

Package Archives

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

Package Source	GenomeGraphs_1.22.0.tar.gz
Windows Binary	GenomeGraphs_1.22.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	GenomeGraphs_1.22.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats