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sommer
Solving Mixed Model Equations in R
View on CRAN: Click
here
Download and install sommer package within the R console
Install from CRAN:
install.packages("sommer")
Install from Github:
library("remotes")
install_github("cran/sommer") Install by package version:
library("remotes")
install_version("sommer", "4.4.1") Attach the package and use:
library("sommer")
Maintained by
Giovanny Covarrubias-Pazaran
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.sommer . https://github.com/covaruber/sommer/issues . https://github.com/covaruber/sommer . sommer citation info . sommer results . sommer.pdf . GxE models in sommer . Quantitative genetics using the sommer package . Spatial modeling using the sommer package . translate lme4 to sommer . sommer_4.4.1.tar.gz . sommer_4.4.1.zip . sommer_4.4.1.zip . sommer_4.4.1.zip . sommer_4.4.1.tgz . sommer_4.4.1.tgz . sommer_4.4.1.tgz . sommer_4.4.1.tgz . sommer archive . https://CRAN.R-project.org/package=sommer .
First Published: 2016-01-24
Latest Update: 2023-11-13
Description:
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.
How to cite:
Giovanny Covarrubias-Pazaran (2016). sommer: Solving Mixed Model Equations in R. R package version 4.4.1, https://cran.r-project.org/web/packages/sommer. Accessed 04 May. 2025.
Previous versions and publish date:
1.1 (2016-01-24 21:22), 1.2 (2016-02-07 09:36), 1.3 (2016-03-10 00:06), 1.4 (2016-03-25 00:43), 1.5 (2016-05-03 02:09), 1.6 (2016-05-19 16:29), 1.7 (2016-05-24 00:37), 1.8 (2016-06-06 23:47), 1.9 (2016-07-01 10:57), 2.0 (2016-07-29 00:11), 2.1 (2016-08-31 08:23), 2.2 (2016-10-02 02:01), 2.3 (2016-11-01 11:07), 2.4 (2016-12-01 21:12), 2.5 (2017-01-03 06:19), 2.6 (2017-03-02 08:09), 2.7 (2017-04-15 15:53), 2.8 (2017-06-07 00:14), 2.9 (2017-07-08 23:18), 3.0 (2017-08-24 10:25), 3.1 (2017-10-29 23:05), 3.2 (2018-01-09 21:37), 3.3 (2018-03-05 23:26), 3.4 (2018-04-06 22:58), 3.5 (2018-07-02 20:50), 3.6 (2018-10-08 21:00), 3.7.1 (2018-12-07 08:40), 3.7.2 (2018-12-09 15:50), 3.7.3 (2018-12-10 01:00), 3.7 (2018-12-04 11:20), 3.8 (2019-01-02 20:20), 3.9.1 (2019-03-26 00:00), 3.9.3 (2019-04-04 00:12), 4.0.1 (2019-07-02 19:10), 4.0.4 (2019-08-24 18:20), 4.0.8 (2019-11-01 07:10), 4.0.9 (2020-02-07 07:30), 4.1.0 (2020-06-16 18:30), 4.1.1 (2020-09-30 09:50), 4.1.2 (2021-01-06 17:00), 4.1.3 (2021-04-05 15:50), 4.1.4 (2021-07-29 19:00), 4.1.5 (2021-12-15 05:00), 4.1.6 (2022-04-17 07:20), 4.1.7 (2022-06-16 17:10), 4.1.8 (2022-09-06 06:30), 4.1.9 (2022-09-09 09:20), 4.2.0.1 (2023-01-08 11:20), 4.2.0 (2022-09-11 00:10), 4.2.1.2 (2023-04-07 19:50), 4.3.0 (2023-05-11 07:00), 4.3.1 (2023-06-14 10:30), 4.3.2 (2023-08-11 01:10), 4.3.3 (2023-11-13 07:20), 4.3.4 (2024-03-17 06:30), 4.3.5 (2024-07-31 10:50), 4.3.6 (2024-10-20 07:30), 4.3.7 (2025-02-03 18:20)
Other packages that cited sommer R package
View sommer citation profile
Other R packages that sommer depends,
imports, suggests or enhances
Complete documentation for sommer
Functions, R codes and Examples using
the sommer R package
Some associated functions: A.mat . AI . AR1mat . ARMAmat . CSmat . D.mat . DT_augment . DT_btdata . DT_cornhybrids . DT_cpdata . DT_example . DT_expdesigns . DT_fulldiallel . DT_gryphon . DT_h2 . DT_halfdiallel . DT_ige . DT_legendre . DT_mohring . DT_polyploid . DT_rice . DT_sleepstudy . DT_technow . DT_wheat . DT_yatesoats . E.mat . EM . EMMA . GWAS . H.mat . LD.decay . add.diallel.vars . adiag1 . anova_mmec . anova_mmer . atc . atcg1234 . atr . bathy.colors . bbasis . bivariateRun . build.HMM . coef_mmec . coef_mmer . corImputation . covc . csc . csr . dfToMatrix . dsc . dsr . fcm . fitted_mmec . fitted_mmer . fixm . gvsr . impute . isc . jet.colors . leg . list2usmat . logspace . manhattan . map.plot . mmec . mmer . neMarker . overlay . plot.monitor . plot_mmec . plot_mmer . predict_mmec . predict_mmer . r2 . randef . redmm . residuals_mmec . residuals_mmer . rrc . simGECorMat . sommer-package . spl2Da . spl2Db . spl2Dc . spl2Dmats . stackTrait . summary_mmec . summary_mmer . tpsmmbwrapper . transformConstraints . transp . unsm . usc . usr . vpredict . vs . vsc . vsr . wald .
Some associated R codes: FUN_algorithms.R . FUN_emmeans.R . FUN_markers.R . FUN_plotting.R . FUN_relationships.R . FUN_spatial_a.R . FUN_spatial_b.R . FUN_spatial_c.R . FUN_special.R . FUN_stats.R . FUN_utils.R . FUN_vsc.R . FUN_vsgrvsr.R . GWAS.R . RcppExports.R . mmec.R . mmer.R . predict_mmec.R . predict_mmer.R . vpredict.R . Full sommer package functions and examples
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