A B C D E F G H I L M N O P Q R S T U V W X misc

lme4-package | Linear, generalized linear, and nonlinear mixed models |

allFit | Refit a fitted model with all available optimizers |

anova.merMod | Class "merMod" of Fitted Mixed-Effect Models |

Arabidopsis | Arabidopsis clipping/fertilization data |

as.data.frame.ranef.mer | Extract the modes of the random effects |

as.data.frame.thpr | Profile method for merMod objects |

as.data.frame.VarCorr.merMod | Extract Variance and Correlation Components |

as.function.merMod | Class "merMod" of Fitted Mixed-Effect Models |

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

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 |

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

devcomp | Extract the deviance component list |

devfun2 | Deviance Function in Terms of Standard Deviations/Correlations |

deviance.merMod | Class "merMod" of Fitted Mixed-Effect Models |

df.residual.merMod | Class "merMod" of Fitted Mixed-Effect Models |

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

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

dotplot.ranef.mer | Extract the modes of the random effects |

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

dummy | Dummy variables (experimental) |

Dyestuff | Yield of dyestuff by batch |

Dyestuff2 | Yield of dyestuff by batch |

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

extractAIC.merMod | Class "merMod" of Fitted Mixed-Effect Models |

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 |

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 |

isGLMM | Check characteristics of models |

isGLMM.merMod | Check characteristics of models |

isLMM | Check characteristics of models |

isLMM.merMod | Check characteristics of models |

isNested | Is f1 nested within f2? |

isNLMM | Check characteristics of models |

isNLMM.merMod | Check characteristics of models |

isREML | Check characteristics of models |

isREML.merMod | Check characteristics of models |

isSingular | Test Fitted Model for (Near) Singularity |

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 |

optimizeGlmer | Modular Functions for Mixed Model Fits |

optimizeLmer | Modular Functions for Mixed Model Fits |

Pastes | Paste strength by batch and cask |

Penicillin | Variation in penicillin testing |

plot.lmList | Fit List of lm or glm Objects with a Common Model |

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

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

print.merMod | Class "merMod" of Fitted Mixed-Effect Models |

print.summary.merMod | Class "merMod" of Fitted Mixed-Effect Models |

print.VarCorr.merMod | Extract Variance and Correlation Components |

profile-methods | Profile method for merMod objects |

profile.merMod | Profile method for merMod objects |

pvalues | Getting p-values for fitted models |

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

qqmath.ranef.mer | Extract the modes of the random effects |

ranef | Extract the modes of the random effects |

ranef.merMod | Extract the modes of the random effects |

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

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

refitML | Refit a Model by Maximum Likelihood Criterion |

refitML.merMod | Refit a Model by Maximum Likelihood Criterion |

REMLcrit | Class "merMod" of Fitted Mixed-Effect Models |

rePCA | PCA of random-effects covariance matrix |

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

rePos-class | Class '"rePos"' |

residuals.glmResp | residuals of merMod objects |

residuals.lmResp | residuals of merMod objects |

residuals.merMod | residuals of merMod objects |

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 |

terms.merMod | Class "merMod" of Fitted Mixed-Effect Models |

troubleshooting | Troubleshooting |

update.merMod | Class "merMod" of Fitted Mixed-Effect Models |

updateGlmerDevfun | Modular Functions for Mixed Model Fits |

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 | Class "merMod" of Fitted Mixed-Effect Models |

vcov.summary.merMod | Class "merMod" of Fitted Mixed-Effect Models |

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 |

weights.merMod | Class "merMod" of Fitted Mixed-Effect Models |

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

.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 |