Structural multivariate-univariate linear mixed model solver for multiple random effects and estimation of 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) to include multiple known relationship matrices and estimate complex unknown covariance structures. Spatial models can be fitted using the two-dimensional spline functionality in sommer.
| Version: | 3.9.3 |
| 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: | 2019-04-03 |
| 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 Quantitative genetics using the sommer package Moving to newer versions of sommer Quick start for the sommer package |
| Package source: | sommer_3.9.3.tar.gz |
| Windows binaries: | r-devel: sommer_3.9.3.zip, r-release: sommer_3.9.3.zip, r-oldrel: sommer_3.9.3.zip |
| OS X binaries: | r-release: sommer_3.9.3.tgz, r-oldrel: sommer_3.8.tgz |
| Old sources: | sommer archive |
| Reverse imports: | pcgen |
| Reverse enhances: | emmeans |
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