To install this package, start R and enter:

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

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

GenomeGraphs

Plotting genomic information from Ensembl

Bioconductor version: Release (2.14)

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>

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

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 1.24.0
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_1.24.0.tar.gz
Windows Binary GenomeGraphs_1.24.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) GenomeGraphs_1.24.0.tgz
Mac OS X 10.9 (Mavericks) GenomeGraphs_1.24.0.tgz
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center