offspringCounts: Finds the total number of offspring for each animal in the...

In rmsharp/nprcmanager: Genetic Tools for Colony Management

Finds the total number of offspring for each animal in the pedigree

Description

Optionally find the number that are part of the population of interest.

Usage

offspringCounts(probands, ped, considerPop = FALSE)

Arguments

probands	character vector of egos for which offspring should be counted.
ped	the pedigree information in datatable format. Pedigree (req. fields: id, sire, dam, gen, population). This is the complete pedigree.
considerPop	logical value indication whether or not the number of offspring that are part of the focal population are to be counted? Default is FALSE.

Value

A dataframe with at least id and totalOffspring required and livingOffspring optional.

Examples

library(nprcgenekeepr)
examplePedigree <- nprcgenekeepr::examplePedigree
breederPed <- qcStudbook(examplePedigree, minParentAge = 2,
                         reportChanges = FALSE,
                         reportErrors = FALSE)
focalAnimals <- breederPed$id[!(is.na(breederPed$sire) &
                                  is.na(breederPed$dam)) &
                                is.na(breederPed$exit)]
ped <- setPopulation(ped = breederPed, ids = focalAnimals)
trimmedPed <- trimPedigree(focalAnimals, breederPed)
probands <- ped$id[ped$population]
counts <- offspringCounts(probands, ped)

rmsharp/nprcmanager documentation built on Feb. 2, 2025, 12:45 a.m.