HybridPop-class

[,HybridPop-method

c,HybridPop-method

A lightweight version of <code><a rd-options="" href="/link/Pop-class?package=AlphaSimR&version=0.11.1" data-mini-rdoc="AlphaSimR::Pop-class">Pop-class</a></code> for hybrid lines.
Memory is saved by not storing genotypic data.

The successor to the 'AlphaSim' software for breeding program
simulation [Faux et al. (2016) <doi:10.3835/plantgenome2016.02.0013>].
Used for stochastic simulations of breeding programs to the level of DNA
sequence for every individual. Contained is a wide range of functions for
modeling common tasks in a breeding program, such as selection and crossing.
These functions allow for constructing simulations of highly complex plant and
animal breeding programs via scripting in the R software environment. Such
simulations can be used to evaluate overall breeding program performance and
conduct research into breeding program design, such as implementation of
genomic selection. Included is the 'Markovian Coalescent Simulator' ('MaCS')
for fast simulation of biallelic sequences according to a population
demographic history [Chen et al. (2009) <doi:10.1101/gr.083634.108>].

Chris Gaynor

AlphaSimR

Breeding Program Simulations

Gregor Gorjanc

David Wilson

Daniel Money

John Hickey

HybridPop-class function

<ul>
<li><code>[</code>: Extract HybridPop using index or id</li>
<li><code>c</code>: Combine multiple HybridPops</li>
</ul>

Methods (by generic)

<dl class="dl-horizontal">
<dt><code>nInd</code></dt><dd>number of individuals</dd></dl><dt><code>id</code></dt><dd>an individual's identifier</dd><dt><code>mother</code></dt><dd>the identifier of the individual's mother</dd><dt><code>father</code></dt><dd>the identifier of the individual's father</dd><dt><code>nTraits</code></dt><dd>number of traits</dd><dt><code>gv</code></dt><dd>matrix of genetic values. When using GxE traits,
gv reflects gv when w=0. Dimensions are nInd by nTraits.</dd><dt><code>pheno</code></dt><dd>matrix of phenotypic values. Dimensions are
nInd by nTraits.</dd><dt><code>gxe</code></dt><dd>list containing GxE slopes for GxE traits</dd>

Slots

A lightweight version of <code><a rd-options='' href='Pop-class'>Pop-class</a></code> for hybrid lines.
Memory is saved by not storing genotypic data.

HybridPop-class: Hybrid population

Description

Usage

Arguments

Methods (by generic)

Slots