calculateBaseline.ChipEffectSet {aroma.affymetrix}R Documentation

Estimates the baseline signal chromosome by chromosome

Description

Estimates the baseline signal chromosome by chromosome.

Usage

## S3 method for class 'ChipEffectSet':
calculateBaseline(this, chromosomes=NULL, ploidy=2, defaultPloidy=NA, all=FALSE, force=FALSE, verbose=FALSE, ...)

Arguments

chromosomes An integer vector specifying for which chromsosomes the baseline should be estimated. If NULL, all chromosomes are considered.
ploidy An integer specifying the ploidy that the baseline should have.
defaultPloidy An integer specifying the default ploidy of chromosomes that have not explicitly been allocated one.
all If TRUE, signals are averaged also for cells that are not on the genome.
force If TRUE, the CEL file that stores the is recreated.
verbose See Verbose.
... Not used.

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)

See Also

getAverageFile(). For more information see ChipEffectSet.


[Package aroma.affymetrix version 1.2.0 Index]