Selection-class

Class used to generate objects that manage the selection in the simulations.

Implementation in a simple and efficient way of fully customisable population genetics simulations,
considering multiple loci that have epistatic interactions. Specifically suited to the modelling of
multilocus nucleocytoplasmic systems (with both diploid and haploid loci), it is nevertheless possible
to simulate purely diploid (or purely haploid) genetic models.
Examples of models that can be simulated with Ease are numerous, for example models of genetic
incompatibilities as presented by Marie-Orleach et al. (2022) <doi:10.1101/2022.07.25.501356>.
Many others are conceivable, although few are actually explored, Ease having been developed
in particular to provide a solution so that these kinds of models can be simulated simply.

Ehouarn Faou

Ease

Simulating Explicit Population Genetics Models

Selection-class function

<dl>
<dt><code>genome</code></dt>
<dd>a <code>Genome</code> object</dd></dl>
<dt><code>IDhaplotypes</code></dt>
<dd>IDs of haplotypes</dd>
<dt><code>IDgenotypes</code></dt>
<dd>IDs of genotypes</dd>
<dt><code>IDgenome</code></dt>
<dd>ID of the associated genome</dd>
<dt><code>nbHaplo</code></dt>
<dd>the number of haplotypes</dd>
<dt><code>nbGeno</code></dt>
<dd>the number of genotypes</dd>
<dt><code>gamFit</code></dt>
<dd>the list of gametes' fitness</dd>
<dt><code>indFit</code></dt>
<dd>the list of individuals' fitness</dd>
<dt><code>gamProdFit</code></dt>
<dd>the list of gamete production fitness</dd>
<dt><code>sOnInds</code></dt>
<dd>a logical indicating whether a selection on individuals
has been configured by the user</dd>
<dt><code>sOnGams</code></dt>
<dd>a logical indicating whether a selection on gametes
has been configured by the user</dd>
<dt><code>sOnGamsProd</code></dt>
<dd>a logical indicating whether a selection on gamete
production has been configured by the user</dd>

Slots

Author

Selection class — Selection-class

<dl>
<dt><code>genome</code></dt>
<dd>a <code>Genome</code> object</dd>


<dt><code>IDhaplotypes</code></dt>
<dd>IDs of haplotypes</dd>


<dt><code>IDgenotypes</code></dt>
<dd>IDs of genotypes</dd>


<dt><code>IDgenome</code></dt>
<dd>ID of the associated genome</dd>


<dt><code>nbHaplo</code></dt>
<dd>the number of haplotypes</dd>


<dt><code>nbGeno</code></dt>
<dd>the number of genotypes</dd>


<dt><code>gamFit</code></dt>
<dd>the list of gametes' fitness</dd>


<dt><code>indFit</code></dt>
<dd>the list of individuals' fitness</dd>


<dt><code>gamProdFit</code></dt>
<dd>the list of gamete production fitness</dd>


<dt><code>sOnInds</code></dt>
<dd>a logical indicating whether a selection on individuals
has been configured by the user</dd>


<dt><code>sOnGams</code></dt>
<dd>a logical indicating whether a selection on gametes
has been configured by the user</dd>


<dt><code>sOnGamsProd</code></dt>
<dd>a logical indicating whether a selection on gamete
production has been configured by the user</dd>


</dl>

Selection-class: `Selection` class

Description

Arguments

Slots

Author

Details