GetGenotypes

This function applies the <code>hap2geno</code> function to all entries of a
list. Each entry of that list is a different locus simulated with
<code>scrm::scrm()</code>. Thus, this function converts the haplotypes of all simulated
loci into genotypes.

internal

Simulates pooled sequencing data under a variety of conditions.
Also allows for the evaluation of the average absolute difference between allele frequencies
computed from genotypes and those computed from pooled data.
Carvalho et al., (2022) <doi:10.1101/2023.01.20.524733>.

João Carvalho

poolHelper

Simulates Pooled Sequencing Genetic Data

Vítor Sousa

GetGenotypes function

<dl><dt>haplotypes</dt>
<dd>a list of haplotypes obtained from the simulations done
with <code>scrm::scrm()</code>. Each entry of the list is a matrix that corresponds to
a given locus. At each matrix, each column is a different site and each row
is a different haplotype.</dd>
<dt>nDip</dt>
<dd>an integer representing the total number of diploid individuals
to simulate. Note that this is the total number of diploid individuals and
not the number of individuals per population.</dd></dl>

Arguments

Create genotypes from a output with haplotypes — GetGenotypes

<dl>

<dt>haplotypes</dt>
<dd>a list of haplotypes obtained from the simulations done
with <code>scrm::scrm()</code>. Each entry of the list is a matrix that corresponds to
a given locus. At each matrix, each column is a different site and each row
is a different haplotype.</dd>


<dt>nDip</dt>
<dd>an integer representing the total number of diploid individuals
to simulate. Note that this is the total number of diploid individuals and
not the number of individuals per population.</dd>

</dl>

GetGenotypes: Create genotypes from a output with haplotypes

Description

Usage

Value

Arguments