batch: The batch variable for the samples.

Description Usage Arguments Value Author(s) See Also Examples

Description

Copy number estimates are susceptible to systematic differences between groups of samples that were processed at different times or by different labs. While 'batch' is often unknown, a useful surrogates is often the scan date of the arrays (e.g., the month of the calendar year) or the 96 well chemistry plate on which the samples were arrayed during lab processing.

Usage

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batch(object)
batchNames(object)
batchNames(object) <- value

Arguments

object

An object of class CNSet.

value

For 'batchNames', the value must be a character string corresponding of the unique batch names.

Value

The method 'batch' returns a character vector that has the same length as the number of samples in the CNSet object.

Author(s)

R. Scharpf

See Also

CNSet-class

Examples

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a <- matrix(1:25, 5, 5)
colnames(a) <- letters[1:5]
object <- new("CNSet", alleleA=a, batch=rep("batch1", 5))
batch(object)
batchNames(object)

benilton/oligoClasses-release documentation built on May 11, 2017, 4:19 a.m.