indiv_inbreeding

indiv_inbreeding.tbl_df

indiv_inbreeding.vctrs_bigSNP

indiv_inbreeding.grouped_df

This function calculates the inbreeding coefficient for each individual based
on the beta estimate from Weir and Goudet (2017).

We provide a tidy grammar of population genetics, facilitating
the manipulation and analysis of data on biallelic single nucleotide
polymorphisms (SNPs). 'tidypopgen' scales to very large genetic datasets
by storing genotypes on disk, and performing operations on them in
chunks, without ever loading all data in memory. The full
functionalities of the package are described in Carter et al. (2025)
<doi:10.1111/2041-210x.70204>.

Andrea Manica

tidypopgen

Tidy Population Genetics

Evie Carter

Eirlys Tysall

Chang Christopher

Shaun Purcell

Bengtsson Henrik

indiv_inbreeding function

<dl><dt>.x</dt>
<dd>a vector of class <code>vctrs_bigSNP</code> (usually the <code>genotype</code> column of
a <code>gen_tibble</code> object), or a <code>gen_tibble</code>.</dd>
<dt>method</dt>
<dd>currently only "WG17" (for Weir and Goudet 2017).</dd>
<dt>allele_sharing_mat</dt>
<dd>optional and only relevant for "WG17", the matrix
of Allele Sharing returned by <code>pairwise_allele_sharing()</code> with
<code>as_matrix=TRUE</code>. As a number of statistics can be derived from the Allele
Sharing matrix, it is sometimes more efficient to pre-compute this matrix.
It is not possible to use this with grouped tibbles.</dd>
<dt>...</dt>
<dd>currently unused.</dd></dl>

Arguments

Individual inbreeding coefficient — indiv_inbreeding

<dl>

<dt>.x</dt>
<dd>a vector of class <code>vctrs_bigSNP</code> (usually the <code>genotype</code> column of
a <code>gen_tibble</code> object), or a <code>gen_tibble</code>.</dd>


<dt>method</dt>
<dd>currently only "WG17" (for Weir and Goudet 2017).</dd>


<dt>allele_sharing_mat</dt>
<dd>optional and only relevant for "WG17", the matrix
of Allele Sharing returned by <code>pairwise_allele_sharing()</code> with
<code>as_matrix=TRUE</code>. As a number of statistics can be derived from the Allele
Sharing matrix, it is sometimes more efficient to pre-compute this matrix.
It is not possible to use this with grouped tibbles.</dd>


<dt>...</dt>
<dd>currently unused.</dd>

</dl>

Individual inbreeding coefficient

indiv_inbreeding: Individual inbreeding coefficient

Description

Usage

Value

Arguments

References

Examples