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

 

   

This is the development version of oposSOM; for the stable release version, see oposSOM.

Comprehensive analysis of transciptome data

Bioconductor version: Development (3.4)

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 1.11.0
In Bioconductor since BioC 3.0 (R-3.1) (2 years)
License GPL (>=2)
Depends R (>= 3.0), igraph (>= 1.0.0)
Imports som, fastICA, scatterplot3d, pixmap, fdrtool, ape, 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_1.11.0.tar.gz
Windows Binary oposSOM_1.11.0.zip
Mac OS X 10.9 (Mavericks) oposSOM_1.11.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/oposSOM
Package Short Url http://bioconductor.org/packages/oposSOM/
Package Downloads Report Download Stats

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