callLOH {PureCN} | R Documentation

## Get regions of LOH

### Description

This function provides detailed LOH information by region.

### Usage

    callLOH(res, id = 1, arm.cutoff = 0.9, keep.no.snp.segments = TRUE)

### Arguments

`res` | Return object of the `runAbsoluteCN` function.
`id` | Candidate solution to extract LOH from. `id=1` will use the maximum likelihood solution.
`arm.cutoff` | Min fraction LOH on a chromosome arm to call whole arm events.
`keep.no.snp.segments` | Segments without heterozygous SNPs have no LOH information. This defines whether these segments should be reported anyways.

### Value

Returns `data.frame` with LOH regions.

### Author(s)

Markus Riester

### See Also

`runAbsoluteCN`

### Examples

    data(purecn.example.output)
    head(callLOH(purecn.example.output))

[Package PureCN version 1.20.0 Index]