Package: spaMM 4.5.0
spaMM: Mixed-Effect Models, with or without Spatial Random Effects
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 restricted likelihood. 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.
Authors:
spaMM_4.5.0.tar.gz
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spaMM.pdf |spaMM.html✨
spaMM/json (API)
NEWS
# Install 'spaMM' in R: |
install.packages('spaMM', repos = c('https://f-rousset.r-universe.dev', 'https://cloud.r-project.org')) |
- Gryphon_A - Gryphon data
- Gryphon_df - Gryphon data
- Gryphon_pedigree - Gryphon data
- Leuca - Leucadendron data
- Loaloa - Loa loa prevalence in North Cameroon, 1991-2001
- Nmatrix - Lip cancer in Scotland 1975 - 1980
- adjlg - Simulated data set for testing sparse-precision code
- adjlgMat - Simulated data set for testing sparse-precision code
- arabidopsis - Arabidopsis genetic and climatic data
- blackcap - Genetic polymorphism in relation to migration in the blackcap
- clinics - Toy dataset for binomial response
- freight - Freight dataset
- landMask - Masks of seas or lands
- salamander - Salamander mating data
- scotlip - Lip cancer in Scotland 1975 - 1980
- seaMask - Masks of seas or lands
- seeds - Seed germination data
- small_spde - Interpolated Markov Random Field models
- wafers - Data from a resistivity experiment for semiconductor materials.
- welding - Welding data set
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 5 months agofrom:5266384732. Checks:OK: 7 NOTE: 2. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 07 2024 |
R-4.5-win-x86_64 | NOTE | Nov 07 2024 |
R-4.5-linux-x86_64 | NOTE | Nov 07 2024 |
R-4.4-win-x86_64 | OK | Nov 07 2024 |
R-4.4-mac-x86_64 | OK | Nov 07 2024 |
R-4.4-mac-aarch64 | OK | Nov 07 2024 |
R-4.3-win-x86_64 | OK | Nov 07 2024 |
R-4.3-mac-x86_64 | OK | Nov 07 2024 |
R-4.3-mac-aarch64 | OK | Nov 07 2024 |
Exports:.calc_CARdispGammaGLM.calc_dispGammaGLM.crossprod.dispFn.dispInv.evalWrapper.HLfit_body_augZXy.is_spprec_fit.modify_list.NB_shapeFn.NB_shapeInv.nuFn.nuInv.rhoFn.rhoInv.safe_opt.setCluster.solve_IRLS_as_spprec.solve_IRLS_as_ZX.stripOffset.stripRanefs.tcrossprod.unloads4spaMM.wrap_Ltri_t_chol.ZWZtadjacencyAIC.HLfitanova.HLfitanova.LMLTantisymAR1ARMAARpas_LMLTas_precisionBetabeta_respbetabinbinomializeCauchyCauchyCorrCauchyCorr.defaultCauchyCorr.dgCMatrixCauchyCorr.dsCMatrixcoefcoef.corMaterncoef<-coef<-.corMaterncombineparCOMPoissonconfint.HLfitcorFactorcorFactor.corMaterncorMaterncorMatrixcorMatrix.corMaternCorrcorrFamilycorrHLfitcorrHLfit_bodycorrMatrixcorrMM.LRTdef_AUGI0_ZX_spprecdef_sXaug_EigenDense_QRP_Chol_scaleddef_sXaug_Matrix_CHM_H_scaleddef_sXaug_Matrix_QRP_CHM_scaleddev_residsdeviance.HLfitdf.residual.HLfitdialleldim.Kronfactodim.precisiondimnames.bigqdiv_infoDoFdofuturedopardrop1.HLfitdrop1.LMLTeval_replicateextractAIC.HLfitextreme_eigfamily.HLfitfilled.mapMMfitmefitme_bodyfitmvfitmv_bodyfitted.HLfitfitted.HLfitlistfixedLRTfixeffixef.HLfitformula.HLfitget_any_ICget_cPredVarget_fittedParsget_fixefVarget_from_MMEget_from_MME_defaultget_from_MME_default.matrixget_from_MME_default.Matrixget_from_MME.AUGI0_ZX_spprecget_from_MME.defaultget_from_MME.sparseMatrixget_from_MME.sXaug_EigenDense_QRP_Chol_scaledget_from_MME.sXaug_Matrix_CHM_H_scaledget_from_MME.sXaug_Matrix_QRP_CHM_scaledget_HLCorcallget_inits_from_fitget_intervalsget_matrixget_predCov_var_fixget_predVarget_rankinfoget_ranParsget_residVarget_respVarget_RLRsim_argsget_RLRTSim_argsget_ZALMatrixgetCall.HLfitgetCovariategetCovariate.corMaterngetDistMatglm.nodev.fitgridIMRFhatvalues.HLfitHLCorHLCor_bodyHLCor.objHLfitHLfit_bodyHLfit_body_oldHLfit.objhowhow.defaulthow.HLfithow.HLfitlistIMRFInitializeInitialize.corMaterninverse.Gammais_separatedis_separated.formulalev2boolllm.fitlogDetlogDet.corMaternlogLik.HLfitlogLik.HLfitlistLR2R2LRTmake_scaled_distmakeTicksmap_ranefmapMMmat_sqrtMaternMaternCorrMaternCorr.defaultMaternCorr.dgCMatrixMaternCorr.dsCMatrixMaternIMRFamodel.frame.HLfitmodel.matrix.HLfitmodel.matrix.LMLTslotsmodel.offset.HLfitMSFDRmultinegbinnegbin1negbin2niceLabelsnobs.HLfitnumInfoovercatpdep_effectsplot_effectsplot.HLfitPoissonpredict.HLfitPredictorpreprocess_fix_corrprint.arglistprint.bootci4printprint.corr_familyprint.fixedLRTprint.HLfitprint.HLfitlistprint.predictionsprint.predictorprint.ranefprint.singeigsprint.vcov.HLfitprojpathpseudoR2ranefranef.HLfitranGCArecalcrecalc.corMaternregister_cFregularizeremove_from_parlistresiduals.HLfitresidVarresponseSAR_WWtsimulate_ranefsimulate.HLfitsimulate.HLfitlistsimulate4bootspaMM_bootspaMM_GammaspaMM_glmspaMM_glm.fitspaMM.colorsspaMM.filled.contourspaMM.getOptionspaMM.optionsspaMM2bootspaMMplot2Dstr.inla.spde2stripHLfitsummary.fixedLRTsummary.HLfitsummary.HLfitlistt.ZAXlistterms.HLfitTnegbinTpoissonunregister_cFupdate_formulasupdate_respupdate.HLfitVarCorrVarCorr.HLfitVariogramVariogram.corMaternvcov.HLfitweights.HLfitX.antisymX.GCA
Dependencies:abindbackportsbootcheckmatecrayongeometrygmplatticelinproglpSolvemagicMASSMatrixminqanlmenloptrnumDerivpbapplyproxyRcppRcppEigenRcppProgressregistryROIslam