pairFST

This functions calculates pairwise FST values according to Hudson's estimator
following Bathia. FST values are calculated for each pairwise combination of
the populations present in the data (defined by the <code>nPops</code> parameter).

internal

Provides functions to simulate Pool-seq data under models of
demographic formation and to import Pool-seq data from real populations.
Implements two ABC algorithms for performing parameter estimation and
model selection using Pool-seq data. Cross-validation can also be
performed to assess the accuracy of ABC estimates and model choice.
Carvalho et al., (2022) <doi:10.1111/1755-0998.13834>.

João Carvalho

poolABC

Approximate Bayesian Computation with Pooled Sequencing Data

Vítor Sousa

pairFST function

<dl><dt>nPops</dt>
<dd>is an integer indicating how many populations are present in the
data.</dd>
<dt>Pop_pi</dt>
<dd>is a matrix of allele frequencies. Each row of that matrix
should correspond to a different population and each column to a different
site.</dd>
<dt>coverage</dt>
<dd>is a matrix containing depths of coverage. Each row of that
matrix should correspond to a different population and each column to a
different site.</dd></dl>

Arguments

Pairwise FST among populations — pairFST

<dl>

<dt>nPops</dt>
<dd>is an integer indicating how many populations are present in the
data.</dd>


<dt>Pop_pi</dt>
<dd>is a matrix of allele frequencies. Each row of that matrix
should correspond to a different population and each column to a different
site.</dd>


<dt>coverage</dt>
<dd>is a matrix containing depths of coverage. Each row of that
matrix should correspond to a different population and each column to a
different site.</dd>

</dl>

pairFST: Pairwise FST among populations

Description

Usage

Value

Arguments

Details