Package: sommer
Type: Package
Title: Solving Mixed Model Equations in R
Version: 4.5.03
Date: 2026-09-30
Authors@R: c(
    person("Giovanny","Covarrubias-Pazaran", email="cova_ruber@live.com.mx", role=c("aut","cre"),
	comment=c(ORCID="0000-0002-7194-3837"))
	)
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Description: Structural multivariate-univariate linear mixed model
        solver for estimation of multiple random effects with unknown
        variance-covariance structures (e.g., unstructured, diagonal,
        autoregressive, factor analytic, reduced rank, among others)
        and known covariance among levels of random effects (e.g.,
        pedigree and genomic relationship matrices)
        (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>;
        Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et
        al., 1997). REML estimates can be obtained using the
        Direct-Inversion Newton-Raphson and Direct-Inversion Average
        Information algorithms for the problems r x r (r being the
        number of records) or using the Henderson-based average
        information algorithm for the problem c x c (c being the number
        of coefficients to estimate).
Depends: R (>= 3.5.0), Matrix (>= 1.6-2), methods, stats, enhancer
LazyLoad: yes
License: GPL-3
Imports: Rcpp (>= 0.12.19), MASS, crayon
BugReports: https://github.com/covaruber/sommer/issues
URL: https://github.com/covaruber/sommer
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, RcppEigen, Matrix
SystemRequirements: METIS graph partitioning library (optional; enables
        nested-dissection sparse ordering for large relationship
        matrices, auto-detected at configure time, falls back to AMD
        ordering when absent), NVIDIA CUDA toolkit with cuBLAS and
        cuSOLVER (optional; enables GPU kernels on Linux through
        SOMMER_CUDA_HOME; CUDA libraries are loaded dynamically)
Suggests: flexiblas, RhpcBLASctl, parallelly, rmarkdown, knitr, plyr,
        parallel, orthopolynom, RSpectra, lattice, emmeans (>= 1.4),
        estimability, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
RoxygenNote: 7.3.2
Config/pak/sysreqs: nvidia-cuda-dev
Repository: https://covaruber.r-universe.dev
Date/Publication: 2026-10-21 01:48:57 UTC
RemoteUrl: https://github.com/covaruber/sommer
RemoteRef: HEAD
RemoteSha: 0cd4d5ab75ceb255eee7f5e579c63a2d89a6e4c3
NeedsCompilation: yes
Packaged: 2026-10-21 06:27:29 UTC; root
Author: Giovanny Covarrubias-Pazaran [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-7194-3837>)