R (>= 3.5.0), stats, Matrix, CompQuadForm, survey, kinship2

Gene-Level Variant Association Tests for Pedigree Data
Gene-level variant association tests with disease status for pedigree data: kernel and burden association statistics.

c(person("Albart", "Coster", role = c("aut", "cre"), email =
"albart@dairyconsult.nl"))

Versatile Functions for Working with Pedigrees
Ana Ines Vazquez, Douglas Bates, Siddharth Avadhanam, Paulino Perez
Tools to sort, edit and prune pedigrees and to extract the inbreeding coefficients
and the relationship matrix (includes code for pedigrees from self-pollinated species).
The use of pedigree data is central to genetics research within the animal and plant breeding communities to predict
breeding values. The relationship matrix between the individuals can be derived from pedigree structure following
the algorithms described for example in Vazquez et al., 2010 <doi:10.2527/jas.2009-1952>.

Douglas Bates [aut],
Ana Ines Vazquez [aut, cre]

c(
person("Benjamin", "Christoffersen",
email = "boennecd@gmail.com",
role = c("cre", "aut")),
person("Alan", "Genz",
role = c("cph")),
person("Frank", "Bretz",
role = c("cph")),
person("Bjoern", "Bornkamp",
role = c("cph")),
person("Torsten", "Hothorn",
role = c("cph")),
person("Christophe", "Dutang",
role = c("cph")),
person("Diethelm", "Wuertz",
role = c("cph")),
person("R-core", email = "R-core@R-project.org",
role = "cph"))
Provides functions to estimate mixed probit models using, for
instance, pedigree data like in <doi:10.1002/sim.1603>. The models are also
commonly called liability threshold models. The approximation is
based on direct log marginal likelihood approximations like the randomized
Quasi-Monte Carlo suggested by <doi:10.1198/106186002394> with a similar
procedure to approximate the derivatives. Graph-based methods are also
provided that can be used to simplify pedigrees.
testthat, mvtnorm, xml2, knitr, rmarkdown, R.rsp, abind,
kinship2, igraph
Benjamin Christoffersen [cre, aut],
Alan Genz [cph],
Frank Bretz [cph],
Bjoern Bornkamp [cph],
Torsten Hothorn [cph],
Christophe Dutang [cph],
Diethelm Wuertz [cph],
R-core [cph]