get_generations

Calculates generational distances and kinship coefficients between all pairs of individuals
represented in a directed family graph. The function identifies shortest paths between
individuals, accounts for common ancestors, and derives kinship coefficients based on
the number of generations separating each pair.

Implementation of LT-FH++, an extension of
the liability threshold family history (LT-FH) model.
LT-FH++ uses a Gibbs sampler for sampling from the truncated
multivariate normal distribution and allows for
flexible family structures. LT-FH++ was first described in
Pedersen, Emil M., et al. (2022)
<doi:10.1016/j.ajhg.2022.01.009>
as an extension to LT-FH with more flexible family structures,
and again as the age-dependent liability threshold (ADuLT) model
Pedersen, Emil M., et al. (2023)
<https://www.nature.com/articles/s41467-023-41210-z>
as an alternative to traditional time-to-event genome-wide
association studies, where family history was not considered.

Emil Michael Pedersen

LTFHPlus

Implementation of LT-FH++

Florian Privé

Bjarni Jóhann Vilhjálmsson

Esben Agerbo

Jette Steinbach

Lucas Rasmussen

get_generations function

<dl><dt>fam_graph</dt>
<dd>An <a href="/link/igraph?package=LTFHPlus&version=2.2.0" data-mini-rdoc="LTFHPlus::igraph">igraph</a> object representing the family structure,
where directed edges indicate parent–child relationships (from parent to child). See get_family_graphs().</dd></dl>

Arguments

Compute Generational Distances and Kinship Coefficients from a Family Graph — get_generations

<dl>

<dt>fam_graph</dt>
<dd>An <a href='https://rdrr.io/pkg/igraph/man/aaa-igraph-package.html'>igraph</a> object representing the family structure,
where directed edges indicate parent–child relationships (from parent to child). See get_family_graphs().</dd>

</dl>

get_generations: Compute Generational Distances and Kinship Coefficients from a Family Graph

Description

Usage

Value

Arguments

Examples