haplo_comp: Compute haplotype frequencies and genotype probabilities

In funkhou9/breedTools: Tools for use in breed composition prediction using genomic data

Description

Calculates haplotype frequencies and uses them to estimate genotype probabilities

Usage

haplo_comp(x, y = NULL, haplotypes = FALSE)

Arguments

x	A data.frame that contains haplotypes for individuals (rows) of a population, for a number of SNPs (columns). Haplotypes coded 0 or 1 as type character.
y	A data.frame that contains haplotypes for individuals (rows) of a population, for a number of SNPs (columns). Haplotypes coded 0 or 1 as type character.
haplotypes	boolean. If true, return haplotype frequencies of population x. If false, return breed probability matrix (posterior probabilities for each breed, rows, to have particular genotype, columns)

Value

Either haplotype frequencies or breed probability matrix

funkhou9/breedTools documentation built on May 16, 2019, 4:04 p.m.