Package: plantmix
Title: Genetic Study of Plant Mixtures
Version: 1.0.4
Authors@R: c(person("Timothee", "Flutre", email="timothee.flutre@inrae.fr", role=c("aut", "ctb", "cre"), comment=c(ORCID="0000-0003-4489-4782")),
    person("", "INRAE", role=c("cph","fnd")),
    person("Jerome", "Enjalbert", email="jerome.enjalbert@inrae.fr", role=c("ctb"), comment=c(ORCID="0000-0003-0408-2253")),
    person("Emma", "Forst", email="emma.forst@inra.fr", role=c("ctb"), comment=c(ORCID="0000-0001-9557-3589")),
    person("Maxence", "Remerand", email="maxence.remerand@ens-paris-saclay.fr", role=c("ctb"), comment=c(ORCID="0009-0007-3217-5613")),
    person("Jemay", "Salomon", email="jemaysalomon@gmail.com", role=c("ctb"), comment=c(ORCID="0000-0003-4454-7916")))
Maintainer: Timothee Flutre <timothee.flutre@inrae.fr>
Description: Fit linear mixed models dedicated to the genetic study of
        plant mixtures, such as those based on general and specific
        mixing abilities (GMA-SMA) as well as direct and social
        breeding values (DBV-SBV), also known as direct and indirect
        genetic effects (DGE-IGE). More details in Forst et al (2019,
        <doi:10.1016/j.fcr.2019.107571>) for GMA-SMA models, and
        Salomon et al (2026, <doi:10.1093/genetics/iyag177>) for
        DBV-SBV models. The package also provides functions to optimize
        experimental designs, simulate data sets and compute
        interaction indices.
Depends: R (>= 4.0.0), ggplot2, lme4
Imports: graphics, igraph, MASS, Matrix, methods, Rcpp (>= 1.0.13),
        stats, TMB (>= 1.9.21), utils
License: AGPL-3
Copyright: INRAE
Encoding: UTF-8
RoxygenNote: 7.3.3
Suggests: breedR, INLA, emmeans, knitr, MM4LMM, rmarkdown, testthat
Additional_repositories: https://famuvie.github.io/breedR,
        https://inla.r-inla-download.org/R/stable
VignetteBuilder: knitr
LinkingTo: TMB, Rcpp, RcppEigen
NeedsCompilation: yes
Packaged: 2026-10-14 18:01:02 UTC; root
Author: Timothee Flutre [aut, ctb, cre] (ORCID:
        <https://orcid.org/0000-0003-4489-4782>), INRAE [cph, fnd],
        Jerome Enjalbert [ctb] (ORCID:
        <https://orcid.org/0000-0003-0408-2253>), Emma Forst [ctb]
        (ORCID: <https://orcid.org/0000-0001-9557-3589>), Maxence
        Remerand [ctb] (ORCID:
        <https://orcid.org/0009-0007-3217-5613>), Jemay Salomon [ctb]
        (ORCID: <https://orcid.org/0000-0003-4454-7916>)
Config/pak/sysreqs: cmake libglpk-dev make libxml2-dev
Repository: https://timflutre.r-universe.dev
Date/Publication: 2026-10-14 11:10:14 UTC
RemoteUrl: https://github.com/cran/plantmix
RemoteRef: HEAD
RemoteSha: 7e75ce63c7d419c393e36242924497c685f9d9ea