Package: optiSel
Type: Package
Title: Optimum Contribution Selection and Population Genetics
Version: 2.1.0
Date: 2026-02-18
Authors@R: c(person("Robin", "Wellmann", 
	role  = c("aut", "cre"),
	email = "ro.wellmann@gmail.com"))
Depends: R (>= 3.5.0)
Description: A framework for the optimization of breeding programs via
        optimum contribution selection and mate allocation. An easy to
        use set of function for computation of optimum contributions of
        selection candidates, and of the population genetic parameters
        to be optimized. These parameters can be estimated using
        pedigree or genotype information, and include kinships,
        kinships at native haplotype segments, and breed composition of
        crossbred individuals. They are suitable for managing genetic
        diversity, removing introgressed genetic material, and
        accelerating genetic gain. Additionally, functions are provided
        for computing genetic contributions from ancestors, inbreeding
        coefficients, the native effective size, the native genome
        equivalent, pedigree completeness, and for preparing and
        plotting pedigrees. The methods are described in:\n Wellmann,
        R., and Pfeiffer, I. (2009) <doi:10.1017/S0016672309000202>.\n
        Wellmann, R., and Bennewitz, J. (2011)
        <doi:10.2527/jas.2010-3709>.\n Wellmann, R., Hartwig, S.,
        Bennewitz, J. (2012) <doi:10.1186/1297-9686-44-34>.\n de Cara,
        M. A. R., Villanueva, B., Toro, M. A., Fernandez, J. (2013)
        <doi:10.1111/mec.12560>.\n Wellmann, R., Bennewitz, J.,
        Meuwissen, T.H.E. (2014) <doi:10.1017/S0016672314000196>.\n
        Wellmann, R. (2019) <doi:10.1186/s12859-018-2450-5>.
License: GPL-2
Imports: Matrix, plyr, kinship2, nadiv, pedigree, pspline, stringr,
        MASS, methods, stats, purrr, graphics, quadprog, data.table,
        magic, parallel, doParallel, foreach, ECOSolveR, reshape2,
        optiSolve, Rcpp (>= 0.12.4)
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, ggplot2, rmarkdown, alabama, cccp, nloptr, Rsymphony,
        smacof
Encoding: UTF-8
VignetteBuilder: knitr
RoxygenNote: 7.1.1
NeedsCompilation: yes
Packaged: 2026-07-03 08:01:32 UTC; root
Author: Robin Wellmann [aut, cre]
Maintainer: Robin Wellmann <ro.wellmann@gmail.com>
Config/pak/sysreqs: cmake libfreetype6-dev libglu1-mesa-dev make
        texlive libicu-dev libpng-dev libuv1-dev libgl1-mesa-dev
        zlib1g-dev
Repository: https://rowellmann.r-universe.dev
Date/Publication: 2026-02-19 09:07:38 UTC
RemoteUrl: https://github.com/cran/optiSel
RemoteRef: HEAD
RemoteSha: 4317bc1a4468e23f8ceca33b54b308302f984530