dot-maf: Calculate Minor Allele Frequency (MAF)

In hsphase: Phasing, Pedigree Reconstruction, Sire Imputation and Recombination Events Identification of Half-sib Families Using SNP Data

Calculate Minor Allele Frequency (MAF)

Description

This function calculates the minor allele frequency (MAF) for a given single nucleotide polymorphism (SNP) data. The SNP data should be coded numerically: 0 for homozygous for the first allele (AA), 1 for heterozygous (AB), and 2 for homozygous for the second allele (BB). Missing data should be coded as 9.

Usage

.maf(snp)

Arguments

snp	A numeric vector representing the genotype of individuals for a single SNP. The genotype should be coded as 0 for AA, 1 for AB, and 2 for BB. Use 9 to represent missing data.

Value

A numeric value representing the minor allele frequency (MAF) for the SNP data provided.

Examples

snp_data <- c(0, 0, 1, 2, 2, 9)
maf_value <- .maf(snp_data)
print(maf_value)

hsphase documentation built on May 29, 2024, 2:20 a.m.