- recipe bioconductor-vsn
Variance stabilization and calibration for microarray data
- Homepage:
- License:
Artistic-2.0
- Recipe:
- Links:
biotools: vsn
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.
- package bioconductor-vsn¶
-
- Versions:
3.62.0-1
,3.62.0-0
,3.60.0-0
,3.58.0-1
,3.58.0-0
,3.56.0-0
,3.54.0-0
,3.52.0-1
,3.50.0-0
,3.62.0-1
,3.62.0-0
,3.60.0-0
,3.58.0-1
,3.58.0-0
,3.56.0-0
,3.54.0-0
,3.52.0-1
,3.50.0-0
,3.48.1-0
,3.46.0-0
,3.44.0-0
,3.38.0-1
- Depends:
bioconductor-affy
>=1.72.0,<1.73.0
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-limma
>=3.50.0,<3.51.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-vsn
and update with:
conda update bioconductor-vsn
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-vsn:<tag>
(see bioconductor-vsn/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-vsn/README.html)