R: Collapsing (or recoding) genotypes into different categories...

inheritance {SNPassoc} | R Documentation

## Collapsing (or recoding) genotypes into different categories (generally two) depending on a given genetic mode of inheritance

### Description

codominant function recodifies a variable having genotypes depending on the allelic frequency in descending order.

dominant, recessive, and overdominant functions collapse the three categories of a given SNP into two categories as follows: Let 'AA', 'Aa', and 'aa' be the three genotypes. After determining the most frequent allele (let's suppose that 'A' is the major allele) the functions return a vector with to categories as follows. dominant: 'AA' and 'Aa-aa'; recessive: 'AA-Aa' and 'aa'; overdominant: 'AA-aa' vs 'Aa'.

additive function creates a numerical variable, 1, 2, 3 corresponding to the three genotypes sorted out by descending allelic frequency (this model is referred as log-additive).

### Usage

    codominant(o)
    dominant(o)
    recessive(o)
    overdominant(o)
    additive(o)

### Arguments

`o` | categorical covariate having genotypes

### Examples

    data(SNPs)
    dominant(snp(SNPs$snp10001,sep=""))
    overdominant(snp(SNPs$snp10001,sep=""))

[Package SNPassoc version 1.9-2 Index]