vsn

Description

The package implements a method for normalising microarray intensities from 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.

Code

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Topics

Depended on by (50)

People

• Wolfgang Huber author maintainer
• Federal Ministry of Research, Technology and Space of Germany, DHGP fnd
• Robert Gentleman contributor
• Hans-Ulrich Klein contributor
• Dennis Kostka contributor
• David Kreil contributor
• Deepayan Sarkar contributor
• Gordon Smyth contributor
• Anja von Heydebreck author