calculateBaseline.ChipEffectSet: Estimates the baseline signal chromosome by chromosome

calculateBaseline.ChipEffectSetR 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

See Also

getAverageFile(). For more information see ChipEffectSet.


aroma.affymetrix documentation built on May 29, 2024, 4:32 a.m.