To install this package, start R and enter:

## try http:// if https:// URLs are not supported

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




Variance stabilization and calibration for microarray data

Bioconductor version: Release (3.5)

The package implements a method for normalising microarray intensities, and works for single- and multiple-color arrays. It can also be used for data from other technologies, as long as they have similar format. The method uses a robust variant of the maximum-likelihood estimator for an additive-multiplicative error model and affine calibration. The model incorporates data calibration step (a.k.a. normalization), a model for the dependence of the variance on the mean intensity and a variance stabilizing data transformation. Differences between transformed intensities are analogous to "normalized log-ratios". However, in contrast to the latter, their variance is independent of the mean, and they are usually more sensitive and specific in detecting differential transcription.

Author: Wolfgang Huber, with contributions from Anja von Heydebreck. Many comments and suggestions by users are acknowledged, among them Dennis Kostka, David Kreil, Hans-Ulrich Klein, Robert Gentleman, Deepayan Sarkar and Gordon Smyth

Maintainer: Wolfgang Huber <wolfgang.huber at>

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


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


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



PDF R Script Introduction to vsn (Sweave version)
PDF R Script Likelihood Calculations for vsn
PDF Verifying and assessing the performance with simulated data
HTML R Script Introduction to vsn (HTML version)
PDF   Reference Manual
Text   NEWS


biocViews Microarray, OneChannel, Preprocessing, Software, TwoChannel
Version 3.44.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 12 years)
License Artistic-2.0
Depends R (>= 3.0.0), Biobase
Imports methods, affy, limma, lattice, ggplot2, hexbin
Suggests affydata, hgu95av2cdf, BiocStyle, knitr, dplyr, testthat
Depends On Me affyPara, cellHTS2, MmPalateMiRNA, webbioc
Imports Me arrayQualityMetrics, imageHTS, LVSmiRNA, metaseqR, MSnbase, pvca, Ringo, tilingArray
Suggests Me adSplit, beadarray, BiocCaseStudies, DESeq, DESeq2, estrogen, flowVS, ggbio, GlobalAncova, globaltest, limma, lumi, PAA, twilight
Build Report  

Package Archives

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

Package Source vsn_3.44.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) vsn_3.44.0.tgz
Subversion source (username/password: readonly)
Git source
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: