| cake | Breakage Angle of Chocolate Cakes | 
| cbpp | Contagious bovine pleuropneumonia | 
| checkConv | Extended Convergence Checking | 
| coef.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| confint.merMod | Compute Confidence Intervals for Parameters of a [ng]lmer Fit | 
| confint.thpr | Compute Confidence Intervals for Parameters of a [ng]lmer Fit | 
| convergence | Assessing Convergence for Fitted Models | 
| cooks.distance.influence.merMod | Influence Diagnostics for Mixed-Effects Models | 
| cooks.distance.merMod | Influence Diagnostics for Mixed-Effects Models | 
| cov2sdcor | Convert between representations of (co-)variance structures | 
| Cv_to_Sv | Convert between representations of (co-)variance structures | 
| Cv_to_Vv | Convert between representations of (co-)variance structures | 
| factorize | Attempt to convert grouping variables to factors | 
| family.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| findbars | Determine random-effects expressions from a formula | 
| fitted.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| fixed.effects | Extract fixed-effects estimates | 
| fixef | Extract fixed-effects estimates | 
| fixef.merMod | Extract fixed-effects estimates | 
| formatVC | Print and Summary Method Utilities for Mixed Effects | 
| formula.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| fortify | add information to data based on a fitted model | 
| fortify.merMod | add information to data based on a fitted model | 
| getData | add information to data based on a fitted model | 
| getData.merMod | add information to data based on a fitted model | 
| getL | Extract or Get Generalized Components from a Fitted Mixed Effects Model | 
| getL-method | Extract or Get Generalized Components from a Fitted Mixed Effects Model | 
| getME | Extract or Get Generalized Components from a Fitted Mixed Effects Model | 
| getME.merMod | Extract or Get Generalized Components from a Fitted Mixed Effects Model | 
| GHrule | Univariate Gauss-Hermite quadrature rule | 
| glFormula | Modular Functions for Mixed Model Fits | 
| glmer | Fitting Generalized Linear Mixed-Effects Models | 
| glmer.nb | Fitting Negative Binomial GLMMs | 
| glmerControl | Control of Mixed Model Fitting | 
| glmerLaplaceHandle | Handle for 'glmerLaplace' | 
| glmerMod-class | Class "merMod" of Fitted Mixed-Effect Models | 
| glmFamily | Generator object for the 'glmFamily' class | 
| glmFamily-class | Class '"glmFamily"' - a reference class for 'family' | 
| glmResp | Generator objects for the response classes | 
| glmResp-class | Reference Classes for Response Modules, '"(lm|glm|nls|lmer)Resp"' | 
| golden | Class '"golden"' and Generator for Golden Search Optimizer Class | 
| golden-class | Class '"golden"' and Generator for Golden Search Optimizer Class | 
| GQdk | Sparse Gaussian / Gauss-Hermite Quadrature grid | 
| GQN | Sparse Gaussian / Gauss-Hermite Quadrature grid | 
| grouseticks | Data on red grouse ticks from Elston et al. 2001 | 
| grouseticks_agg | Data on red grouse ticks from Elston et al. 2001 | 
| lFormula | Modular Functions for Mixed Model Fits | 
| llikAIC | Print and Summary Method Utilities for Mixed Effects | 
| lme4 | Linear, generalized linear, and nonlinear mixed models | 
| lme4_testlevel | Detect testing level for lme4 examples and tests | 
| lmer | Fit Linear Mixed-Effects Models | 
| lmerControl | Control of Mixed Model Fitting | 
| lmerMod-class | Class "merMod" of Fitted Mixed-Effect Models | 
| lmerResp | Generator objects for the response classes | 
| lmerResp-class | Reference Classes for Response Modules, '"(lm|glm|nls|lmer)Resp"' | 
| lmList | Fit List of lm or glm Objects with a Common Model | 
| lmList4-class | Class "lmList4" of 'lm' Objects on Common Model | 
| lmResp | Generator objects for the response classes | 
| lmResp-class | Reference Classes for Response Modules, '"(lm|glm|nls|lmer)Resp"' | 
| log.thpr | Profile method for merMod objects | 
| logLik.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| logProf | Profile method for merMod objects | 
| mcmcsamp | Getting p-values for fitted models | 
| merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| merMod-class | Class "merMod" of Fitted Mixed-Effect Models | 
| merPredD | Generator object for the 'merPredD' class | 
| merPredD-class | Class '"merPredD"' - a Dense Predictor Reference Class | 
| methTitle | Print and Summary Method Utilities for Mixed Effects | 
| mkDataTemplate | Make templates suitable for guiding mixed model simulations | 
| mkGlmerDevfun | Modular Functions for Mixed Model Fits | 
| mkLmerDevfun | Modular Functions for Mixed Model Fits | 
| mkMerMod | Create a 'merMod' Object | 
| mkNewReTrms | Make Random Effect Terms: Create Z, Lambda, Lind, etc. | 
| mkParsTemplate | Make templates suitable for guiding mixed model simulations | 
| mkRespMod | Create an lmerResp, glmResp or nlsResp instance | 
| mkReTrms | Make Random Effect Terms: Create Z, Lambda, Lind, etc. | 
| mkVarCorr | Make Variance and Correlation Matrices from 'theta' | 
| mlist2vec | Convert between representations of (co-)variance structures | 
| model.frame.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| model.matrix.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| modular | Modular Functions for Mixed Model Fits | 
| namedList | Self-naming list function | 
| negative.binomial | Fitting Negative Binomial GLMMs | 
| NelderMead | Class '"NelderMead"' of Nelder-Mead optimizers and its Generator | 
| NelderMead-class | Class '"NelderMead"' of Nelder-Mead optimizers and its Generator | 
| Nelder_Mead | Nelder-Mead Optimization of Parameters, Possibly (Box) Constrained | 
| ngrps | Number of Levels of a Factor or a "merMod" Model | 
| ngrps.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| nlformula | Manipulate a Nonlinear Model Formula | 
| nlmer | Fitting Nonlinear Mixed-Effects Models | 
| nlmerControl | Control of Mixed Model Fitting | 
| nlmerMod-class | Class "merMod" of Fitted Mixed-Effect Models | 
| nlminbwrap | Wrappers for additional optimizers | 
| nloptwrap | Wrappers for additional optimizers | 
| nlsResp | Generator objects for the response classes | 
| nlsResp-class | Reference Classes for Response Modules, '"(lm|glm|nls|lmer)Resp"' | 
| nobars | Omit terms separated by vertical bars in a formula | 
| nobs | Class "merMod" of Fitted Mixed-Effect Models | 
| nobs.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| sdcor2cov | Convert between representations of (co-)variance structures | 
| show-method | Class "lmList4" of 'lm' Objects on Common Model | 
| show-method | Class "merMod" of Fitted Mixed-Effect Models | 
| show.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| show.summary.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| sigma | Extract Residual Standard Deviation 'Sigma' | 
| sigma.merMod | Extract Residual Standard Deviation 'Sigma' | 
| simulate.formula | A 'simulate' Method for 'formula' objects that dispatches based on the Left-Hand Side | 
| simulate.merMod | Simulate Responses From 'merMod' Object | 
| sleepstudy | Reaction times in a sleep deprivation study | 
| splom.thpr | Mixed-Effects Profile Plots (Regular / Density / Pairs) | 
| subbars | "Sub[stitute] Bars" | 
| summary.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| summary.summary.merMod | Class "merMod" of Fitted Mixed-Effect Models | 
| Sv_to_Cv | Convert between representations of (co-)variance structures | 
| VarCorr | Extract Variance and Correlation Components | 
| VarCorr.merMod | Extract Variance and Correlation Components | 
| varianceProf | Profile method for merMod objects | 
| vcconv | Convert between representations of (co-)variance structures | 
| vcov.merMod | Covariance matrix of estimated parameters | 
| vcov.summary.merMod | Covariance matrix of estimated parameters | 
| vec2mlist | Convert between representations of (co-)variance structures | 
| vec2STlist | Convert between representations of (co-)variance structures | 
| VerbAgg | Verbal Aggression item responses | 
| Vv_to_Cv | Convert between representations of (co-)variance structures | 
| .makeCC | Control of Mixed Model Fitting | 
| .prt.aictab | Print and Summary Method Utilities for Mixed Effects | 
| .prt.call | Print and Summary Method Utilities for Mixed Effects | 
| .prt.family | Print and Summary Method Utilities for Mixed Effects | 
| .prt.grps | Print and Summary Method Utilities for Mixed Effects | 
| .prt.methTit | Print and Summary Method Utilities for Mixed Effects | 
| .prt.resids | Print and Summary Method Utilities for Mixed Effects | 
| .prt.VC | Print and Summary Method Utilities for Mixed Effects | 
| .prt.warn | Print and Summary Method Utilities for Mixed Effects | 
| .simulateFun | Simulate Responses From 'merMod' Object | 
| || | Expand terms with "||" notation into separate "|" terms |