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Comprehensive analysis of transcriptome data

Bioconductor version: Release (3.19)

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>, Hoang Thanh Le <le at> and Martin Kalcher <mkalcher at>

Maintainer: Henry Loeffler-Wirth <wirth at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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

The oposSOM users guide PDF R Script
Reference Manual PDF


biocViews DataRepresentation, DifferentialExpression, GeneExpression, GeneSetEnrichment, Software, Visualization
Version 2.22.0
In Bioconductor since BioC 3.0 (R-3.1) (10 years)
License GPL (>=2)
Depends R (>= 4.0.0), igraph (>= 1.0.0)
Imports fastICA, tsne, scatterplot3d, pixmap, fdrtool, ape, biomaRt, Biobase, RcppParallel, Rcpp, methods, graph, XML, png, RCurl
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Follow Installation instructions to use this package in your R session.

Source Package oposSOM_2.22.0.tar.gz
Windows Binary
macOS Binary (x86_64) oposSOM_2.22.0.tgz
macOS Binary (arm64) oposSOM_2.22.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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