bioconda / packages / bioconductor-vsn 3.62.0

Variance stabilization and calibration for microarray data

Installers

Info: This package contains files in non-standard labels.

conda install

  • linux-64  v3.62.0
  • osx-64  v3.62.0
To install this package with conda run one of the following:
conda install -c bioconda bioconductor-vsn
conda install -c bioconda/label/gcc7 bioconductor-vsn
conda install -c bioconda/label/cf201901 bioconductor-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.


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