isHeterozygous {VanillaICE} | R Documentation

## Assess whether genotype is heterozygous based on BAFs

### Description

Assess whether genotype is heterozygous based on BAFs

### Usage

    isHeterozygous(object, cutoff)

    ## S4 method for signature 'ArrayViews'
    isHeterozygous(object, cutoff)

    ## S4 method for signature 'SnpArrayExperiment'
    isHeterozygous(object, cutoff)

    ## S4 method for signature 'numeric'
    isHeterozygous(object, cutoff)

    ## S4 method for signature 'matrix'
    isHeterozygous(object, cutoff)

### Arguments

`object` | a SnpArrayExperiment or ArrayViews object containing BAFs, a matrix of BAFs, or a numeric vector of BAFs. vector of BAFs
`cutoff` | a length-two numeric vector providing the range of BAFs consistent with allelic heterozygosity

### Examples

    if(require("BSgenome.Hsapiens.UCSC.hg18")){
      bsgenome <- BSgenome.Hsapiens.UCSC.hg18
      snp_exp <- getExampleSnpExperiment(bsgenome)
      is_het <- isHeterozygous(snp_exp[, 1], c(0.4, 0.6))
      table(is_het)
    }

[Package VanillaICE version 1.42.4 Index]