popImprovByParentSel: Run population improvement using parent selection

In wolfemd/alphaSimHlpR: Functions added to AlphaSimR to simplify simulating breeding schemes

Description

Function to improve a simulated breeding population by one cycle. This version is adjusted relative to the original popImprov1Cyc function, which drew candidates from the full records$F1 (excluding potentially indivs only scored during the current year, if useCurrentPhenoTrain=FALSE). My changes:

• nTrainPopCycles: draw additional training pop clones only from this number of recent cycles.

• nYrsAsCandidates: candidates for selection only from this number of recent years

• maxTrainingPopSize: From the lines in the most recent cycles (indicated by nTrainPopCycles), subsample this number of lines for training data. This is in addition to the "check" (bsp$checks@id) and the lines indicates as selection 'candidates' according to the setting of 'nYrsAsCandidates'. All "historical" data will always be used, but the number of maximum training lines will be held constant. Replaces the stage-specific 'bsp$trainingPopCycles', which will be unused in this pipeline, but not deleted from the package.

• The selection criteria parentSelCritBLUP and parentSelCritGEBV will allow both 'candidates' and the additional training pop lines to be selected for crossing. Previous version only allowed selection of the 'candidates'.

Usage

popImprovByParentSel(records, bsp, SP)

Arguments

records	The breeding program records object. See fillPipeline for details
bsp	A list of breeding scheme parameters
SP	The AlphaSimR SimParam object

Details

This function uses penotypic records coming out of the product pipeline to choose individuals as parents to initiate the next breeding cycle

Value

A records object with a new F1 Pop-class object of progeny coming out of a population improvement scheme

wolfemd/alphaSimHlpR documentation built on Sept. 19, 2021, 6:25 p.m.