subPed: Creates a Subset of a Large Pedigree

In optiSel: Optimum Contribution Selection and Population Genetics

Creates a Subset of a Large Pedigree

Description

Creates a subset of a large pedigree that includes only individuals related with specified individuals in a predefined way.

Usage

subPed(Pedig, keep, prevGen=3, succGen=0)

Arguments

Pedig	Data frame containing the pedigree where the first 3 columns correspond to: Individual ID, Sire, and Dam. More columns can be passed in the Pedig argument including columns named Sex, Breed (with breed names), and Born (with years of birth). Missing parents are coded as NA, 0, or "0".
keep	Vector with IDs of individuals. Only these individuals and individuals related with them in a predefined way will be kept in the pedigree.
prevGen	Number of previous (ancestral) generations to be included in the pedigree.
succGen	Number of succeeding (descendant) generations to be included in the pedigree.

Details

This function creates a subset of a large pedigree that includes only individuals related with the individuals specified in the vector keep in a predefined way.

Value

A data frame containing the reduced pedigree. A column keep is appended indicating which individuals were included in parameter keep.

Author(s)

Robin Wellmann

Examples

data(PedigWithErrors)

sPed <- subPed(PedigWithErrors, keep="276000891974272", prevGen=3, succGen=2)
sPed

label <- c("Indiv", "Born", "Breed")
pedplot(sPed, mar=c(2,4,2,4), label=label, cex=0.7)

optiSel documentation built on Sept. 11, 2024, 7:19 p.m.