sommer: Solving Mixed Model Equations in R
Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) 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). Spatial models can also be fitted using the two-dimensional spline functionality available.
| Version: | 4.4.1 |
| Depends: | R (≥ 3.5.0), Matrix (≥ 1.1.1), methods, stats, MASS, crayon |
| Imports: | Rcpp (≥ 0.12.19) |
| LinkingTo: | Rcpp, RcppArmadillo, RcppProgress |
| Suggests: | rmarkdown, knitr, plyr, parallel, orthopolynom, RSpectra, lattice, testthat (≥ 3.0.0) |
| Published: | 2025-04-04 |
| Author: | Giovanny Covarrubias-Pazaran
 [aut, cre] |
| Maintainer: | Giovanny Covarrubias-Pazaran <cova_ruber at live.com.mx> |
| BugReports: | https://github.com/covaruber/sommer/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/covaruber/sommer |
| NeedsCompilation: | yes |
| Citation: | sommer citation info |
| Materials: | README ChangeLog |
| In views: | Agriculture, MixedModels |
| CRAN checks: | sommer results |
Documentation:
| Reference manual: | sommer.pdf |
| Vignettes: |
GxE models in sommer (source, R code) Quantitative genetics using the sommer package (source, R code) Spatial modeling using the sommer package (source, R code) translate lme4 to sommer (source, R code) |
Downloads:
| Package source: | sommer_4.4.1.tar.gz |
| Windows binaries: | r-devel: sommer_4.3.7.zip, r-release: sommer_4.3.7.zip, r-oldrel: sommer_4.3.7.zip |
| macOS binaries: | r-devel (arm64): sommer_4.3.7.tgz, r-release (arm64): sommer_4.3.7.tgz, r-oldrel (arm64): sommer_4.3.7.tgz, r-devel (x86_64): sommer_4.3.7.tgz, r-release (x86_64): sommer_4.3.7.tgz, r-oldrel (x86_64): sommer_4.3.7.tgz |
| Old sources: | sommer archive |
Reverse dependencies:
| Reverse imports: | EstimateBreed, gpcp, IPLGP, lmDiallel, mlmm.gwas, pcgen, statgenGWAS, statgenQTLxT |
| Reverse suggests: | lucid, MoBPS |
| Reverse enhances: | biometryassist, emmeans |
Linking:
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