maffy.normalize {affy}R Documentation

Normalize Itensities

Description

Normalizes feature intensities from AffyBatchs

Usage

maffy.normalize(data,subset,verbose=FALSE,span=0.25,family="symmetric",log.it=TRUE)

Arguments

data

an matrix of intensities.

subset

a vector of indexes describing which probes to use for normalising.

verbose

logical value.

span

See loess.

family

See loess.

log.it

logical value.

Details

Please refer to references.

Value

The normalized intensities.

Author(s)

Magnus Astrand

References

Astrand, M. (2003) http://www.math.chalmers.se/~magnusaa/maffy/

See Also

maffy.subset

Examples

if (require(affydata)) {
  data(Dilution)
  x <- pm(Dilution)[1:2000,1:3]
  mva.pairs(x)
  x <- maffy.normalize(x,subset=1:nrow(x))
  mva.pairs(x)
}

[Package affy version 1.38.0 Index]