findGeneration: Determines the generation number for each id.

In rmsharp/nprcmanager: Genetic Tools for Colony Management

Description

This loops through the entire pedigree one generation at a time. It finds the zeroth generation during first loop. The first time through this loop no sire or dam is in parents. This means that the animals without a sire and without a dam are assigned to generation 0 and become the first parental generation. The second time through this loop finds all of the animals that do not have a sire or do not have a dam and at least one parent is in the vector of parents defined the first time through. The ids that were not assigned as parents in the previous loop are given the incremented generation number.

Subsequent trips in the loop repeat what was done the second time through until no further animals can be added to the nextGen vector.

This does not work if the pedigree does not have all parent IDs as ego IDs.

Usage

findGeneration(id, sire, dam)

Arguments

id	character vector with unique identifier for an individual
sire	character vector with unique identifier for an individual's father (NA if unknown).
dam	character vector with unique identifier for an individual's mother (NA if unknown).

Value

An integer vector indication the generation numbers for each id, starting at 0 for individuals lacking IDs for both parents.

Examples

library(nprcgenekeepr)
ped <- nprcgenekeepr::lacy1989Ped[ , c("id", "sire", "dam")]
ped$gen <- findGeneration(ped$id, ped$sire, ped$dam)
ped

rmsharp/nprcmanager documentation built on April 24, 2021, 3:13 p.m.