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:	4.3.5
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:	2024-07-31
DOI:	10.32614/CRAN.package.sommer
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:	Quick start for the sommer package (source, R code) Moving to newer versions of sommer (source, R code) Quantitative genetics using the sommer package (source, R code) GxE models in sommer (source, R code) translate lme4 to sommer (source, R code) Spatial modeling using the sommer package (source, R code)

Downloads:

Package source:	sommer_4.3.5.tar.gz
Windows binaries:	r-devel: sommer_4.3.5.zip, r-release: sommer_4.3.5.zip, r-oldrel: sommer_4.3.5.zip
macOS binaries:	r-release (arm64): sommer_4.3.5.tgz, r-oldrel (arm64): sommer_4.3.5.tgz, r-release (x86_64): sommer_4.3.5.tgz, r-oldrel (x86_64): sommer_4.3.5.tgz
Old sources:	sommer archive

Reverse dependencies:

Reverse imports:	IPLGP, lmDiallel, mlmm.gwas, pcgen, statgenGWAS, statgenQTLxT
Reverse suggests:	lucid, MoBPS
Reverse enhances:	biometryassist, emmeans

Linking:

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