F2009

Pedigree adapted from Fikse 2009 with genetic groups and fuzzy classification

datasets

Constructs (non)additive genetic relationship matrices, and their
inverses, from a pedigree to be used in linear mixed effect models (A.K.A.
the 'animal model'). Also includes other functions to facilitate the use of
animal models. Some functions have been created to be used in conjunction
with the R package 'asreml' for the 'ASReml' software, which can be
obtained upon purchase from 'VSN' international
(<https://vsni.co.uk/software/asreml>).

Matthew Wolak

nadiv

(Non)Additive Genetic Relatedness Matrices

F2009 function

A <code>data.frame</code> with 16 observations on the following 11 variables:<dl>
 <dt>id </dt>
<dd>a factor with levels indicating the unique individuals 
 (including phantom parents) and genetic groups</dd> <dt>dam </dt>
<dd>a factor of observed maternal identities</dd> <dt>sire </dt>
<dd>a factor vector of observed paternal identities</dd> <dt>damGG </dt>
<dd>a factor of maternal identities with genetic groups
 inserted instead of <code>NA</code></dd> <dt>sireGG </dt>
<dd>a factor of paternal identities with genetic groups
 inserted instead of <code>NA</code></dd> <dt>phantomDam </dt>
<dd>a factor of maternal identities with phantom parents
 inserted instead of <code>NA</code></dd> <dt>phantomSire </dt>
<dd>a factor of paternal identities with phantom parents
 inserted instead of <code>NA</code></dd> <dt>group </dt>
<dd>a factor of genetic groups to which each phantom parent
 belongs</dd> <dt>g1 </dt>
<dd>a numeric vector with probabilities of group <code>g1</code>
 membership for each phantom parent</dd> <dt>g2 </dt>
<dd>a numeric vector with probabilities of group <code>g2</code>
 membership for each phantom parent</dd> <dt>g3 </dt>
<dd>a numeric vector with probabilities of group <code>g3</code>
 membership for each phantom parent</dd> 
</dl>

Format

Pedigree adapted from Fikse 2009 with genetic groups and fuzzy classification — F2009

A <code>data.frame</code> with 16 observations on the following 11 variables:<dl>
 <dt>id </dt>
<dd>a factor with levels indicating the unique individuals 
 (including phantom parents) and genetic groups</dd>

 <dt>dam </dt>
<dd>a factor of observed maternal identities</dd>

 <dt>sire </dt>
<dd>a factor vector of observed paternal identities</dd>

 <dt>damGG </dt>
<dd>a factor of maternal identities with genetic groups
 inserted instead of <code>NA</code></dd>

 <dt>sireGG </dt>
<dd>a factor of paternal identities with genetic groups
 inserted instead of <code>NA</code></dd>

 <dt>phantomDam </dt>
<dd>a factor of maternal identities with phantom parents
 inserted instead of <code>NA</code></dd>

 <dt>phantomSire </dt>
<dd>a factor of paternal identities with phantom parents
 inserted instead of <code>NA</code></dd>

 <dt>group </dt>
<dd>a factor of genetic groups to which each phantom parent
 belongs</dd>

 <dt>g1 </dt>
<dd>a numeric vector with probabilities of group <code>g1</code>
 membership for each phantom parent</dd>

 <dt>g2 </dt>
<dd>a numeric vector with probabilities of group <code>g2</code>
 membership for each phantom parent</dd>

 <dt>g3 </dt>
<dd>a numeric vector with probabilities of group <code>g3</code>
 membership for each phantom parent</dd>

 
</dl>

F2009: Pedigree adapted from Fikse 2009 with genetic groups and fuzzy classification

Description

Usage

Arguments

Format

Examples