ped_sort_i

sort_step

Recursive function that computes steps for sorting algorithm described by Zhang et al (2009).

Inbreeding-purging analysis of pedigreed populations, including the computation of the inbreeding coefficient, partial, ancestral and purged inbreeding coefficients, and measures of the opportunity of purging related to the individual reduction of inbreeding load.
In addition, functions to calculate the effective population size and other parameters relevant to population genetics are included.
See López-Cortegano E. (2021) <doi:10.1093/bioinformatics/btab599>.

Eugenio L<c3><b3>pez-Cortegano

purgeR

Inbreeding-Purging Estimation in Pedigreed Populations

Eugenio López-Cortegano

ped_sort_i function

<dl><dt>p</dt>
<dd>Pedigree to sort (used as template)</dd>
<dt>id</dt>
<dd>A string naming the column with individual identities. It will be renamed to its default value 'id'.</dd>
<dt>dam</dt>
<dd>A string naming the column with maternal identities. It will be renamed to its default value 'dam'.</dd>
<dt>sire</dt>
<dd>A string naming the column with paternal identities. It will be renamed to its default value 'sire'.</dd>
<dt>t</dt>
<dd>Template for the new sorted pedigree</dd>
<dt>S</dt>
<dd>Vector of assumed parent individuals</dd>
<dt>G</dt>
<dd>Vector of generation numbers (0 identifies the youngest)</dd>
<dt>t_G</dt>
<dd>Vector G for the new sorted pedigree</dd></dl>

Arguments

Sorting steps — ped_sort_i

<dl>

<dt>p</dt>
<dd>Pedigree to sort (used as template)</dd>


<dt>id</dt>
<dd>A string naming the column with individual identities. It will be renamed to its default value 'id'.</dd>


<dt>dam</dt>
<dd>A string naming the column with maternal identities. It will be renamed to its default value 'dam'.</dd>


<dt>sire</dt>
<dd>A string naming the column with paternal identities. It will be renamed to its default value 'sire'.</dd>


<dt>t</dt>
<dd>Template for the new sorted pedigree</dd>


<dt>S</dt>
<dd>Vector of assumed parent individuals</dd>


<dt>G</dt>
<dd>Vector of generation numbers (0 identifies the youngest)</dd>


<dt>t_G</dt>
<dd>Vector G for the new sorted pedigree</dd>

</dl>

ped_sort_i: Sorting steps

Description

Usage

Value

Arguments

References

See Also