pedmod: Pedigree Models

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. The minimax tilting method suggested by <doi:10.1111/rssb.12162> is also supported. Graph-based methods are also provided that can be used to simplify pedigrees.

Version: 0.2.4
Depends: R (≥ 3.5.0)
Imports: Rcpp, alabama
LinkingTo: Rcpp, RcppArmadillo, BH, testthat, psqn
Suggests: testthat, mvtnorm, xml2, knitr, rmarkdown, R.rsp, abind, kinship2, igraph, TruncatedNormal, numDeriv
Published: 2022-09-11
DOI: 10.32614/CRAN.package.pedmod
Author: Benjamin Christoffersen ORCID iD [cre, aut], Alan Genz [cph], Frank Bretz [cph], Bjoern Bornkamp [cph], Torsten Hothorn [cph], Christophe Dutang [cph], Diethelm Wuertz [cph], R-core [cph], Leo Belzile [cph], Zdravko Botev [cph]
Maintainer: Benjamin Christoffersen <boennecd at>
License: GPL-3
NeedsCompilation: yes
SystemRequirements: C++17
Materials: NEWS
In views: Agriculture
CRAN checks: pedmod results [issues need fixing before 2024-07-03]


Reference manual: pedmod.pdf
Vignettes: partitioning families


Package source: pedmod_0.2.4.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): pedmod_0.2.4.tgz, r-oldrel (arm64): pedmod_0.2.4.tgz, r-release (x86_64): pedmod_0.2.4.tgz, r-oldrel (x86_64): pedmod_0.2.4.tgz
Old sources: pedmod archive


Please use the canonical form to link to this page.