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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("GenomeGraphs")
In most cases, you don't need to download the package archive at all.
GenomeGraphs
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Plotting genomic information from Ensembl
Bioconductor version: Release (3.5)
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:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | The GenomeGraphs users guide | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Microarray, Software, Visualization |
| Version | 1.36.0 |
| In Bioconductor since | BioC 2.2 (R-2.7) (9.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.10), methods, biomaRt, grid |
| Imports | |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | Genominator, waveTiling |
| Imports Me | |
| Suggests Me | leeBamViews, oligo, oligo, oneChannelGUI, rMAT, triplex |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GenomeGraphs_1.36.0.tar.gz |
| Windows Binary | GenomeGraphs_1.36.0.zip |
| Mac OS X 10.11 (El Capitan) | GenomeGraphs_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GenomeGraphs |
| Package Short Url | http://bioconductor.org/packages/GenomeGraphs/ |
| Package Downloads Report | Download Stats |
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