To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("oposSOM")

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

oposSOM

Comprehensive analysis of transciptome data

Bioconductor version: 3.2

This package translates microarray expression data into metadata of reduced dimension. It provides various sample-centered and group-centered visualizations, sample similarity analyses and functional enrichment analyses. The underlying SOM algorithm combines feature clustering, multidimensional scaling and dimension reduction, along with strong visualization capabilities. It enables extraction and description of functional expression modules inherent in the data.

Author: Henry Loeffler-Wirth <wirth at izbi.uni-leipzig.de> and Martin Kalcher <mkalcher at porkbox.net>

Maintainer: Henry Loeffler-Wirth <wirth at izbi.uni-leipzig.de>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("oposSOM")

Documentation

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

browseVignettes("oposSOM")

PDF		The oposSOM users guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataRepresentation, DifferentialExpression, GeneExpression, GeneSetEnrichment, Software, Visualization
Version	1.6.0
In Bioconductor since	BioC 3.0 (R-3.1) (1.5 years)
License	GPL (>=2)
Depends	R (>= 3.0)
Imports	som, fastICA, scatterplot3d, pixmap, fdrtool, ape, igraph, KernSmooth, biomaRt, Biobase
LinkingTo
Suggests
SystemRequirements
Enhances
URL	http://som.izbi.uni-leipzig.de
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source	oposSOM_1.6.0.tar.gz
Windows Binary	oposSOM_1.6.0.zip
Mac OS X 10.6 (Snow Leopard)	oposSOM_1.6.0.tgz
Mac OS X 10.9 (Mavericks)	oposSOM_1.6.0.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/oposSOM/tree/release-3.2
Package Short Url	http://bioconductor.org/packages/oposSOM/
Package Downloads Report	Download Stats

Documentation »

Bioconductor

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R / CRAN packages and documentation

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