Linear Mixed-Effects Models using 'Eigen' and S4

allFit | Refit a fitted model with all available optimizers |

Arabidopsis | Arabidopsis clipping/fertilization data |

bootMer | Model-based (Semi-)Parametric Bootstrap for Mixed Models |

cake | Breakage Angle of Chocolate Cakes |

cbpp | Contagious bovine pleuropneumonia |

checkConv | Extended Convergence Checking |

confint.merMod | Compute Confidence Intervals for Parameters of a [ng]lmer Fit |

convergence | Assessing Convergence for Fitted Models |

devcomp | Extract the deviance component list |

devfun2 | Deviance Function in Terms of Standard... |

drop1.merMod | Drop all possible single fixed-effect terms from a mixed... |

dummy | Dummy variables (experimental) |

Dyestuff | Yield of dyestuff by batch |

expandDoubleVerts | Expand terms with "||" notation into separate "|" terms |

factorize | Attempt to convert grouping variables to factors |

findbars | Determine random-effects expressions from a formula |

fixef | Extract fixed-effects estimates |

fortify | add information to data based on a fitted model |

getME | Extract or Get Generalized Components from a Fitted Mixed... |

GHrule | Univariate Gauss-Hermite quadrature rule |

glmer | Fitting Generalized Linear Mixed-Effects Models |

glmerLaplaceHandle | Handle for 'glmerLaplace' |

glmer.nb | Fitting Negative Binomial GLMMs |

glmFamily | Generator object for the 'glmFamily' class |

glmFamily-class | Class '"glmFamily"' - a reference class for 'family' |

golden-class | Class '"golden"' and Generator for Golden Search Optimizer... |

GQdk | Sparse Gaussian / Gauss-Hermite Quadrature grid |

grouseticks | Data on red grouse ticks from Elston et al. 2001 |

hatvalues.merMod | Diagonal elements of the hat matrix |

influence.merMod | Influence Diagnostics for Mixed-Effects Models |

InstEval | University Lecture/Instructor Evaluations by Students at ETH |

isNested | Is f1 nested within f2? |

isREML | Check characteristics of models |

isSingular | Test Fitted Model for (Near) Singularity |

lme4-package | 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 |

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,... |

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 |

mkMerMod | Create a 'merMod' Object |

mkRespMod | Create an lmerResp, glmResp or nlsResp instance |

mkReTrms | Make Random Effect Terms: Create Z, Lambda, Lind, etc. |

mkSimulationTemplate | Make templates suitable for guiding mixed model simulations |

mkVarCorr | Make Variance and Correlation Matrices from 'theta' |

modular | Modular Functions for Mixed Model Fits |

namedList | Self-naming list function |

Nelder_Mead | Nelder-Mead Optimization of Parameters, Possibly (Box)... |

NelderMead-class | Class '"NelderMead"' of Nelder-Mead optimizers and its... |

ngrps | Number of Levels of a Factor or a "merMod" Model |

nlformula | Manipulate a Nonlinear Model Formula |

nlmer | Fitting Nonlinear Mixed-Effects Models |

nloptwrap | Wrappers for additional optimizers |

nobars | Omit terms separated by vertical bars in a formula |

Pastes | Paste strength by batch and cask |

Penicillin | Variation in penicillin testing |

plot.merMod | Diagnostic Plots for 'merMod' Fits |

plots.thpr | Mixed-Effects Profile Plots (Regular / Density / Pairs) |

predict.merMod | Predictions from a model at new data values |

profile-methods | Profile method for merMod objects |

pvalues | Getting p-values for fitted models |

ranef | Extract the modes of the random effects |

refit | Refit a (merMod) Model with a Different Response |

refitML | Refit a Model by Maximum Likelihood Criterion |

rePCA | PCA of random-effects covariance matrix |

rePos | Generator object for the rePos (random-effects positions)... |

rePos-class | Class '"rePos"' |

residuals.merMod | residuals of merMod objects |

sigma | Extract Residual Standard Deviation 'Sigma' |

simulate.formula | A 'simulate' Method for 'formula' objects that dispatches... |

simulate.merMod | Simulate Responses From 'merMod' Object |

sleepstudy | Reaction times in a sleep deprivation study |

subbars | "Sub[stitute] Bars" |

troubleshooting | Troubleshooting |

utilities | Print and Summary Method Utilities for Mixed Effects |

VarCorr | Extract Variance and Correlation Components |

vcconv | Convert between representations of (co-)variance structures |

VerbAgg | Verbal Aggression item responses |

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