GenomeGraphs

Plotting genomic information from Ensembl

Bioconductor version: 2.8

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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("GenomeGraphs")

Documentation

PDF R Script The GenomeGraphs users guide
PDF   Reference Manual

Details

biocViews Visualization, Microarray
Depends methods, biomaRt, grid
Imports
Suggests
System Requirements
License Artistic-2.0
URL
Depends On Me Genominator
Imports Me
Suggests Me leeBamViews, oneChannelGUI, rMAT
Version 1.12.0
Since Bioconductor 2.2 (R-2.7)

Package Downloads

Package Source GenomeGraphs_1.12.0.tar.gz
Windows Binary GenomeGraphs_1.12.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary GenomeGraphs_1.12.0.tgz
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