interactiveCNselect {beadarraySNP} | R Documentation

## Interactive assignment of copynumbers to genomic segments

### Description

This function plots the genomic view of a sample, and allows the assignment of a discrete copy number to each segment

### Usage

    interactiveCNselect(object, sample = 1, dnaIndex)

### Arguments

`object` | class `SnpSetIllumina` after segmentation
`sample` | Sample identifier within `object`
`dnaIndex` | numeric, measured DNA index of the sample (1=normal)

### Details

The user can interactively assign discrete, integer copy number values to each segment. This is done by either clicking in the lower part of a panel to decrease the copy number, or in the higher part of a panel to increase the copy number. The order of copy number values is always maintained; a segment with a lower raw value can not get a higher copy number assigned then a segment with a higher raw copy number value.

### Value

list, see `createCNSummary`

### Author(s)

Jan Oosting

### See Also

`segmentate, alterCN, plotGoldenGate4OPA createCNSummary`

[Package beadarraySNP version 1.46.0 Index]