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spaMM
Mixed-Effect Models, with or without Spatial Random Effects
View on CRAN: Click
here
Download and install spaMM package within the R console
Install from CRAN:
install.packages("spaMM")
Install from Github:
library("remotes")
install_github("cran/spaMM") Install by package version:
library("remotes")
install_version("spaMM", "4.6.1") Attach the package and use:
library("spaMM")
Maintained by
François Rousset
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2013-12-15
Latest Update: 2025-06-27
Description:
Inference based on models with or without spatially-correlated random effects, multivariate responses, or non-Gaussian random effects (e.g., Beta). Variation in residual variance (heteroscedasticity) can itself be represented by a mixed-effect model. Both classical geostatistical models (Rousset and Ferdy 2014 <doi:10.1111/ecog.00566>), and Markov random field models on irregular grids (as considered in the 'INLA' package, <https://www.r-inla.org>), can be fitted, with distinct computational procedures exploiting the sparse matrix representations for the latter case and other autoregressive models. Laplace approximations are used for likelihood or restrictedlikelihood. Penalized quasi-likelihood and other variants discussed in the h-likelihood literature (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>) are also implemented.
How to cite:
François Rousset (2013). spaMM: Mixed-Effect Models, with or without Spatial Random Effects. R package version 4.6.1, https://cran.r-project.org/web/packages/spaMM. Accessed 13 Mar. 2026.
Previous versions and publish date:
1.0 (2013-12-15 11:24), 1.1 (2014-01-17 06:22), 1.2.0 (2014-06-25 07:14), 1.3.0 (2014-09-10 00:24), 1.4.0 (2014-11-08 01:59), 1.4.1 (2014-11-09 00:46), 1.5.1 (2015-02-23 00:33), 1.6.2 (2015-11-01 18:00), 1.7.1 (2016-01-21 17:57), 1.7.2 (2016-01-26 00:11), 1.8.0 (2016-04-08 11:14), 1.9.0.1 (2016-07-10 12:00), 1.9.0 (2016-05-24 09:58), 1.9.16 (2016-07-22 01:18), 1.10.0 (2016-09-05 04:17), 2.0.0 (2017-04-07 00:05), 2.1.0 (2017-05-26 00:14), 2.1.6 (2017-07-07 07:44), 2.2.0 (2017-10-03 22:00), 2.3.0 (2018-01-18 18:53), 2.4.0 (2018-04-05 19:16), 2.4.8 (2018-04-14 12:33), 2.4.35 (2018-05-19 23:02), 2.5.0 (2018-09-28 14:00), 2.5.11 (2018-11-19 23:40), 2.6.0 (2019-01-10 15:40), 2.6.1 (2019-01-14 09:40), 2.7.1 (2019-04-14 06:32), 3.0.0 (2019-06-21 10:00), 3.1.2 (2020-02-12 17:00), 3.1.27 (2020-03-10 23:20), 3.2.0 (2020-04-20 08:40), 3.3.0 (2020-05-30 07:10), 3.4.1 (2020-08-11 21:20), 3.5.0 (2020-10-03 07:50), 3.6.0 (2021-01-15 07:10), 3.7.2 (2021-02-26 16:00), 3.7.34 (2021-04-07 11:40), 3.8.0 (2021-06-02 06:40), 3.8.9 (2021-06-28 07:00), 3.8.23 (2021-08-05 15:20), 3.9.0 (2021-09-13 22:20), 3.9.13 (2021-10-02 22:40), 3.9.25 (2021-11-09 10:00), 3.10.0 (2022-02-07 04:30), 3.11.3 (2022-03-23 23:40), 3.11.14 (2022-04-10 01:30), 3.12.0 (2022-06-19 04:20), 3.13.0 (2022-09-05 20:10), 4.0.0 (2022-10-20 20:40), 4.1.0 (2022-11-18 15:40), 4.1.20 (2022-12-12 13:50), 4.2.1 (2023-03-03 16:20), 4.3.0 (2023-05-22 12:20), 4.3.20 (2023-07-06 13:30), 4.4.0 (2023-08-30 01:00), 4.4.16 (2023-12-20 14:50), 4.5.0 (2024-06-10 00:20)
Other packages that cited spaMM R package
View spaMM citation profile
Other R packages that spaMM depends,
imports, suggests or enhances
Complete documentation for spaMM
Functions, R codes and Examples using
the spaMM R package
Some associated functions: AIC . ARp . COMPoisson . CauchyCorr . DoF . GLM.fit . Gryphon . HLCor . HLfit . IMRF . Leuca . Loaloa . MSFDR . MaternCorr . MaternIMRF . PLS-internals . R2 . WinterWheat . ZAXlist . adjlg . algebra . anova.HLfit . arabidopsis . as_LMLT . autoregressive . beta_resp . betabin . blackcap . clinics . composite_ranef . confint . control.HLfit . convergence . corMatern . corrFamily-definition . corrFamily-design . corrFamily . corrHLfit . corrMatrix . corr_family . covStruct . diallel . diallel_fixed . div_info . dofuture . dopar . drop1.HLfit . eval_replicate . extractors . extreme_eig . fitme . fitmv . fix_predVar . fixed.LRT . fixed . freight . get_RLRSim_args . get_cPredVar . get_fittedPars . get_inits_from_fit . get_matrix . good-practice . hatvalues.HLfit . how . inits . inverse.Gamma . is_separated . lev2bool . libraries . llm.fit . make.scaled.dist . mapMM . mat_sqrt . method . multinomial . mv . negbin . negbin1 . numInfo . options . pedigree . phi-resid.model . plot.HL . plot_effect . poisson . post-fit . predVar . predict . random-effects . rankinfo . register_cF . resid.model . residVar . residuals.HLfit . salamander . scotlip . seaMask . seeds . setNbThreads . simulate . spaMM-S3 . spaMM-conventions . spaMM-internal . spaMM.filled.contour . spaMM . spaMM_boot . spaMMcolors . stripHLfit . summary.HL . update . vcov . verbose . wafers . welding . wrap_parallel .
Some associated R codes: Beta.R . COMPoisson.R . CanonizeRanPars.R . GLM.fit.R . HLCor.R . HLCor_body.R . HLFactorList.R . HLfit.R . HLfit_Internals.R . HLfit_b_internals.R . HLfit_body.R . HLfit_body_NOT_loopenv.R . HLfit_body_augZXy.R . HLfit_loop.R . HLframes.R . IRLS_internals.R . LLM.R . LMLTslots.R . LR.R . LevM_internals.R . LevM_v_h.R . LevM_v_h_spprec.R . LevenbergMstep.R . MakeCovEst.R . Matern_family.R . RcppExports.R . SEM.R . X.GCA.R . ZAL_class.R . antisym.R . augZXy_obj.R . betabin.R . betaresp.R . bloc_lambda.R . calc_LRT.R . calc_logdisp_cov.R . combinepar.R . confint.R . constructors_IMRFs.R . corMatern.R . corrFamilies.R . corrFamily.R . corrHLfit-internals.R . corrHLfit.R . corrHLfit_body.R . corrMM.LRT.R . corrPars.R . correlationFns.R . cov_new_fix.R . determine_spprec.R . dispGammaGLM.R . dofuture.R . drop1.R . expandSlash.R . extractors.R . fam2LLfam.R . fit_as_ZX.R . fit_as_sparsePrecision.R . fitme.R . fitme_body.R . fitme_fitmv_internals.R . fitmecorrHLfit_body_internals.R . fitmv_body.R . fitmv_internals.R . generateName.R . geo_info.R . get_cPredVar.R . get_inits_by_glm.R . glm.nodev.fit.R . glm.reformat.R . hatvalues.R . inverse.Gamma.R . llm.fit.R . locoptim.R . makeLowerUpper.R . mapMM.R . multiFRK.R . multinomial.R . negbin1.R . negbin2.R . newPLS.R . numInfo.R . plot.HLfit.R . plot_effects.R . poisson.R . postfit_internals.R . precision_internals.R . predict.R . predict_marg.R . predict_mv.R . predictor.R . preprocess.R . preprocess_MV.R . preprocess_internals.R . profile.R . sXaug_EigenDense_QRP_Chol_scaled.R . sXaug_Matrix_CHM_Hess.R . sXaug_Matrix_QRP_CHM.R . sXaug_sparsePrecisions.R . safe_opt.R . save.R . separator.R . simulate.HL.R . spaMM.data.R . spaMM_boot.R . spaMM_error.R . sparseX.R . step_HLfit.R . summary.HL.R . terms.R . update.HL.R . utils.R . Full spaMM package functions and examples
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