blup

Fit an animal model to data, use a given variance ratio
 (\(\alpha = \frac{\sigma^2_e}{\sigma^ 2_a}\)). Calculate inverse of the
 additive genetic relationship matrix using function <code>makeInv()</code>
 of this package.

utilities

Albart Coster

pedigree

Pedigree Functions

blup function

<dl> <dt>formula</dt>
<dd>formula of the model, do not include the random effect
 due to animal (generally ID).</dd> <dt>ped</dt>
<dd><code>data.frame</code> with columns corresponding to ID, SIRE,
 DAM and the columns in the formula.</dd> <dt>alpha</dt>
<dd>Variance ratio (\(\frac{\sigma^2_e}{\sigma^ 2_a}\)).</dd> <dt>trim</dt>
<dd>If <code>TRUE</code>, trims the pedigree using the available
 phenotype data using function <code>trimPed</code>.</dd></dl>

Arguments

Function to calculate breeding values using an animal model — blup

<dl>

 <dt>formula</dt>
<dd>formula of the model, do not include the random effect
 due to animal (generally ID).</dd>

 <dt>ped</dt>
<dd><code>data.frame</code> with columns corresponding to ID, SIRE,
 DAM and the columns in the formula.</dd>

 <dt>alpha</dt>
<dd>Variance ratio (\(\frac{\sigma^2_e}{\sigma^ 2_a}\)).</dd>

 <dt>trim</dt>
<dd>If <code>TRUE</code>, trims the pedigree using the available
 phenotype data using function <code>trimPed</code>.</dd>

</dl>

blup: Function to calculate breeding values using an animal model

Description

Usage

Value

Arguments

See Also

Examples