copyNumber {CNPBayes}R Documentation

Extract copy number estimates from a 'CopyNumberModel'

Description

Extract copy number estimates from a 'CopyNumberModel'

Usage

copyNumber(object)

## S4 method for signature 'SingleBatchCopyNumber'
copyNumber(object)

## S4 method for signature 'MultiBatchCopyNumber'
copyNumber(object)

## S4 method for signature 'MultiBatchCopyNumberPooled'
copyNumber(object)

Arguments

object

a SingleBatchCopyNumber or MultiBatchCopyNumber object

See Also

mapComponents CopyNumberModel

Examples

sb <- SingleBatchModelExample
cn.model <- CopyNumberModel(sb)
copyNumber(cn.model)

## here is an identity mapping
mapping(cn.model) <- 1:3
identical(copyNumber(cn.model), z(cn.model))
table(copyNumber(cn.model))

## here, we map the first two mixture components to one copy number state
mapping(cn.model) <- c(1, 1, 2)
table(copyNumber(cn.model))

[Package CNPBayes version 1.10.0 Index]