indexSNPs

Selects a random block of a smaller size from a larger contig and obtain the
index of the SNPs that are contained within that block.

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

indexSNPs function

<dl><dt>positions</dt>
<dd>is a numeric vector where each entry corresponds to the
position of a SNP present in the contig.</dd>
<dt>range</dt>
<dd>is a numeric vector with two entries: the first is the minimum
position of any SNP of the contig and the second is the maximum position of
any SNP in that same contig.</dd>
<dt>window</dt>
<dd>is a non-negative integer indicating the size, in base pairs,
of the block of the contig to keep.</dd></dl>

Arguments

Obtain the index of SNPs inside a block with defined size — indexSNPs

<dl>

<dt>positions</dt>
<dd>is a numeric vector where each entry corresponds to the
position of a SNP present in the contig.</dd>


<dt>range</dt>
<dd>is a numeric vector with two entries: the first is the minimum
position of any SNP of the contig and the second is the maximum position of
any SNP in that same contig.</dd>


<dt>window</dt>
<dd>is a non-negative integer indicating the size, in base pairs,
of the block of the contig to keep.</dd>

</dl>

indexSNPs: Obtain the index of SNPs inside a block with defined size

Description

Usage

Value

Arguments

Details