GCAsol-class

Extends <code><a rd-options="" href="/link/LociMap-class?package=AlphaSimR&version=0.10.0" data-mini-rdoc="AlphaSimR::LociMap-class">LociMap-class</a></code> 
to contain estimated effects from <code><a rd-options="" href="/link/RRBLUP_GCA?package=AlphaSimR&version=0.10.0" data-mini-rdoc="AlphaSimR::RRBLUP_GCA">RRBLUP_GCA</a></code>

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

GCAsol-class function

<dl class="dl-horizontal">
<dt><code>femaleEff</code></dt><dd>marker GCA for "female" pool</dd></dl><dt><code>maleEff</code></dt><dd>marker GCA for "male" pool</dd><dt><code>fixEff</code></dt><dd>Estimates for fixed effects</dd><dt><code>Vu</code></dt><dd>Estimated marker variances in order: 
female effects, male effects and SCA effects 
(<code><a rd-options="" href="/link/SCAsol-class?package=AlphaSimR&version=0.10.0" data-mini-rdoc="AlphaSimR::SCAsol-class">SCAsol-class</a></code> only)</dd><dt><code>Ve</code></dt><dd>Estimated error variance</dd><dt><code>LL</code></dt><dd>Log-likelihood</dd><dt><code>iter</code></dt><dd>Number of iterations for convergence</dd>

Slots

Extends <code><a rd-options='' href='LociMap-class'>LociMap-class</a></code> 
to contain estimated effects from <code><a rd-options='' href='RRBLUP_GCA'>RRBLUP_GCA</a></code>

GCAsol-class: RR-BLUP GCA Solution

Description

Arguments

Slots