Package: plantmix
Title: Genetic Study of Plant Mixtures
Version: 1.0.2
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:10.64898/2026.03.27.714849>) 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 (>= 1.9.17), 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: 2026-06-04 19:04:01 UTC; tflutre
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>)
Repository: CRAN
Date/Publication: 2026-06-09 15:50:07 UTC
