| Estimation of extended mixed models using latent classes and latent processes. | lcmm-package |
| Compute the variance matrix | createVarianceMatrix |
| Predicted cumulative incidence of event according to a profile of covariates | cuminc |
| Simulated dataset for hlme function | data_hlme |
| Simulated dataset for lcmm and Jointlcmm functions | data_lcmm |
| Difference of expected prognostic cross-entropy (EPOCE) estimators and its 95% tracking interval between two joint latent class models estimated with 'Jointlcmm' | Diffepoce |
| Individual dynamic predictions from a joint latent class model | dynpred |
| Estimators of the Expected Prognostic Observed Cross-Entropy (EPOCE) for evaluating predictive accuracy of joint latent class models estimated using 'Jointlcmm' | epoce |
| Maximum likelihood estimates | estimates estimates.externSurv estimates.externX estimates.hlme estimates.Jointlcmm estimates.lcmm estimates.mpjlcmm estimates.multlcmm |
| Estimation of a secondary regression model after the estimation of a primary latent class model | externVar |
| Marginal predictions of the longitudinal outcome(s) in their natural scale from 'lcmm', 'Jointlcmm' or 'multlcmm' objects | fitY fitY.Jointlcmm fitY.lcmm fitY.multlcmm |
| For internal use only ... | .Contlcmm .Ordlcmm .plotbaselinerisk .plotfit .plotlinkfunctionmult .plotlinkfuntion .plotpostprob .plotresid .plotsurvival Brandom C_calculustransfo C_cvpl C_hetmixcont C_hetmixcontmult C_hetmixlin C_hetmixord C_jointhet C_postprob2 C_predictcont C_predictmult factor.names ForInternalUse mixture risqcum_spl risq_spl |
| Automatic grid search | gridsearch |
| Estimation of latent class linear mixed models | hlme |
| Conditional probabilities and item information given specified latent process values for 'lcmm' or 'multlcmm' object with ordinal outcomes. | ItemInfo |
| Estimation of joint latent class models for longitudinal and time-to-event data | jlcmm Jointlcmm |
| Estimation of mixed-effect models and latent class mixed-effect models for different types of outcomes (continuous Gaussian, continuous non-Gaussian or ordinal) | lcmm |
| Wrapper to the Fortran subroutines computing the log-likelihood | loglik loglikhlme loglikJointlcmm logliklcmm loglikmpjlcmm loglikmultlcmm |
| Estimation of multivariate joint latent class mixed models | mpjlcmm |
| Estimation of multivariate mixed-effect models and multivariate latent class mixed-effect models for multivariate longitudinal outcomes of possibly multiple types (continuous Gaussian, continuous non-Gaussian/curvilinear, ordinal) that measure the same underlying latent process. | mlcmm multlcmm |
| Longitudinal data on cognitive and physical aging in the elderly | paquid |
| Permutation of the latent classes | permut |
| Plot of a fitted model | plot plot.externSurv plot.externX plot.hlme plot.Jointlcmm plot.lcmm plot.mpjlcmm plot.multlcmm |
| Plot of predicted cumulative incidences according to a profile of covariates | plot.cuminc |
| Plots | plot.Diffepoce plot.epoce plot.pred.accuracy |
| Plot of individual dynamic predictions | plot.dynpred |
| Plot of information functions | plot.ItemInfo |
| Plot of predicted trajectories and link functions | plot.predict plot.predictL plot.predictL.Jointlcmm plot.predictL.lcmm plot.predictL.multlcmm plot.predictlink plot.predictlink.Jointlcmm plot.predictlink.lcmm plot.predictlink.multlcmm plot.predictY plot.predictY.hlme plot.predictY.Jointlcmm plot.predictY.lcmm plot.predictY.multlcmm plot.predictYcond |
| Posterior classification stemmed from a 'hlme', 'lcmm', 'multlcmm' or 'Jointlcmm' estimation | postprob postprob.externSurv postprob.externX postprob.hlme postprob.Jointlcmm postprob.lcmm postprob.mpjlcmm postprob.multlcmm |
| Posterior classification and class-membership probabilities | predictClass |
| Prediction of the Brownian motion or the autoregressive correlation | predictCor |
| Class-specific marginal or subject-specific predictions in the latent process scale for 'lcmm', 'Jointlcmm' and 'multlcmm' objects | predictL predictL.Jointlcmm predictL.lcmm predictL.multlcmm |
| Confidence intervals for the estimated link functions from 'lcmm', 'Jointlcmm' and 'multlcmm' | predictlink predictlink.Jointlcmm predictlink.lcmm predictlink.multlcmm |
| Predictions of the random-effects | predictRE |
| Predictions (marginal and possibly subject-specific in some cases) of a 'hlme', 'lcmm', 'multlcmm' or 'Jointlcmm' object in the natural scale of the longitudinal outcome(s) computed from a profile of covariates. | predictY predictY.hlme predictY.Jointlcmm predictY.lcmm predictY.multlcmm |
| Marginal predictions in the natural scale of a pre-transformed outcome | predictYback |
| Conditional predictions of a 'lcmm', 'multlcmm' or 'Jointlcmm' object in the natural scale of the longitudinal outcome(s) for specified latent process values. | predictYcond |
| Brief summary of a 'hlme', 'lcmm', 'Jointlcmm','multlcmm', 'epoce' or 'Diffepoce' objects | print.Diffepoce print.epoce print.externSurv print.externX print.hlme print.Jointlcmm print.lcmm print.mpjlcmm print.multlcmm |
| Sample models parameters | sampleParameters |
| Simulated dataset simdataHADS | simdataHADS |
| Data simulation according to models from lcmm package | simulate.lcmm |
| Standard methods for estimated models | coef.externSurv coef.externX coef.hlme coef.Jointlcmm coef.lcmm coef.mpjlcmm coef.multlcmm fitted.hlme fitted.Jointlcmm fitted.lcmm fitted.multlcmm fixef.hlme fixef.Jointlcmm fixef.lcmm fixef.multlcmm ranef.hlme ranef.Jointlcmm ranef.lcmm ranef.multlcmm residuals.hlme residuals.Jointlcmm residuals.lcmm residuals.multlcmm StandardMethods vcov.externSurv vcov.externX vcov.hlme vcov.Jointlcmm vcov.lcmm vcov.mpjlcmm vcov.multlcmm |
| Summary of a 'hlme', 'lcmm', 'Jointlcmm', 'multlcmm', 'mpjlcmm', 'externSurv', 'externX' 'epoce' or 'Diffepoce' objects | summary.Diffepoce summary.epoce summary.externSurv summary.externX summary.hlme summary.Jointlcmm summary.lcmm summary.mpjlcmm summary.multlcmm |
| Summary of models | summaryplot |
| Summary of models | summarytable |
| Update the longitudinal submodels | update.mpjlcmm |
| Variance-covariance of the estimates | VarCov |
| Estimates, standard errors and Wald test for the parameters of the variance-covariance matrix of the random effects. | VarCovRE VarCovRE.hlme VarCovRE.Jointlcmm VarCovRE.lcmm VarCovRE.multlcmm |
| Percentage of variance explained by the (latent class) linear mixed model regression | VarExpl VarExpl.hlme VarExpl.Jointlcmm VarExpl.lcmm VarExpl.multlcmm |
| Multivariate Wald Test | WaldMult |
| Cross classifications | xclass |
