haplo_cluster: Cluster parental haplotypes
In jendelman/diaQTL: QTL Analysis in Diallel Populations

haplo_cluster

R Documentation

Cluster parental haplotypes

Description

Cluster parental haplotypes

Usage

haplo_cluster(filename, marker, haplotypes = NULL)

Arguments

`filename`	Name of diaQTL_parents input file
`marker`	Either target marker or marker interval (see Details).
`haplotypes`	Vector of haplotype names (default is all)

Details

The argument marker can be either a single marker or vector of two markers. If a single marker, the function finds the smallest interval containing that marker such that the phased SNP haplotypes are all unique. If two markers are provided, that interval is used. Clustering utilizes hclust(method="average"). See also phased_parents for an additional visualization tool.