Find loops in a pedigree tree — findLoops • nprcgenekeepr

Part of Pedigree Sampling From PedigreeSampling.R 2016-01-28

Usage

findLoops(ptree)

Arguments

ptree: a list of lists forming a pedigree tree as constructed by createPedTree(ped) where ped is a standard pedigree dataframe.

Value

A named list of logical values where each named element is named with an id from ptree. The value of the list element is set to TRUE if the id has a loop in the pedigree. Loops occur when an animal's sire and dam have a common ancestor.

Details

Contains functions to build pedigrees from sub-samples of genotyped individuals.

The goal of sampling is to reduce the number of inbreeding loops in the resulting pedigree, and thus, reduce the amount of time required to perform calculations with SIMWALK2 or similar programs.

Examples

data("examplePedigree")
exampleTree <- createPedTree(examplePedigree)
exampleLoops <- findLoops(exampleTree)