smoothSnp {SNPchip}R Documentation

A simple nonparametric smoother for genotype and copy number

Description

A loess smoother for finding regions of reduced copy number and loss of heterozygosity.

Usage

smoothSnp(object, ...)

Arguments

object Object derived from AnnotatedSnpSet
... For additional arguments see details.

Details

Additional arguments include the chromosomes (character vector) and samples (numerical vector) to smooth. Options for smoothing are set by specifying the span and the method. The loess method is the default and the only method currently available.

Value

An object of the same class, e.g., AnnotatedSnpSet, but assayData elements copyNumber and calls are replaced by the smoothed values.

Note

Author(s)

Robert Scharpf

References

See Also

Examples






[Package SNPchip version 1.2.1 Index]