Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects and unknown variance-covariance structures (i.e. heterogeneous and unstructured variance models) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>). ML/REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms. Designed for genomic prediction and genome wide association studies (GWAS), particularly focused in the p > n problem (more coefficients than observations) and dense known covariance structures for levels of random effects. Spatial models can also be fitted using i.e. the two-dimensional spline functionality available in sommer.
| Version: | 4.1.0 |
| Depends: | R (≥ 2.10), Matrix (≥ 1.1.1), methods, stats, MASS, lattice, crayon |
| Imports: | Rcpp (≥ 0.12.19) |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, plyr, parallel, orthopolynom |
| Published: | 2020-06-16 |
| Author: | Giovanny Covarrubias-Pazaran |
| Maintainer: | Giovanny Covarrubias-Pazaran <cova_ruber at live.com.mx> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | yes |
| Citation: | sommer citation info |
| Materials: | README ChangeLog |
| CRAN checks: | sommer results |
| Reference manual: | sommer.pdf |
| Vignettes: |
FAQ for the sommer package GxE models in sommer Quantitative genetics using the sommer package Moving to newer versions of sommer Quick start for the sommer package Special topics in QG |
| Package source: | sommer_4.1.0.tar.gz |
| Windows binaries: | r-devel: sommer_4.1.0.zip, r-release: sommer_4.1.0.zip, r-oldrel: sommer_4.1.0.zip |
| macOS binaries: | r-release: sommer_4.1.0.tgz, r-oldrel: sommer_4.1.0.tgz |
| Old sources: | sommer archive |
| Reverse imports: | mlmm.gwas, pcgen, statgenGWAS |
| Reverse suggests: | MoBPS |
| Reverse enhances: | emmeans |
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