The package implements a robust variant of the maximum-likelihood estimator for the stochastic model of microarray data described in the references. The model incorporates data calibration (aka 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 , contributions from A. von Heydebreck , Markus Ruschhaupt , D. Kostka |
| Maintainer | Wolfgang Huber |
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("vsn")
Vignettes (Documentation) |
Package Downloads |
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| biocViews | |
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| Depends | R, Biobase, methods, affy, limma |
| Suggests | affydata, hgu95av2cdf, geneplotter |
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| SystemRequirements | |
| License | Artistic License 2.0 |
| URL | http://www.r-project.org, http://www.ebi.ac.uk/huber |
| dependsOnMe | Ringo, arrayMagic, tilingArray, webbioc |
| suggestsMe | GlobalAncova, adSplit, beadarray, cellHTS, ecolitk, globaltest, limma, lumi, twilight |