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lme4 (version 1.1-35.5)

Linear Mixed-Effects Models using 'Eigen' and S4

Description

Fit linear and generalized linear mixed-effects models. The models and their components are represented using S4 classes and methods. The core computational algorithms are implemented using the 'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue".

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install.packages('lme4')

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424,716

Version

1.1-35.5

License

GPL (>= 2)

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Last Published

July 3rd, 2024

Functions in lme4 (1.1-35.5)

cake

Breakage Angle of Chocolate Cakes
checkConv

Extended Convergence Checking
devcomp

Extract the deviance component list
devfun2

Deviance Function in Terms of Standard Deviations/Correlations
VerbAgg

Verbal Aggression item responses
cbpp

Contagious bovine pleuropneumonia
confint.merMod

Compute Confidence Intervals for Parameters of a [ng]lmer Fit
convergence

Assessing Convergence for Fitted Models
dummy

Dummy variables (experimental)
bootMer

Model-based (Semi-)Parametric Bootstrap for Mixed Models
glmFamily-class

allFit

Refit a fitted model with all available optimizers
drop1.merMod

Drop all possible single fixed-effect terms from a mixed effect model
fortify

add information to data based on a fitted model
factorize

Attempt to convert grouping variables to factors
findbars

Determine random-effects expressions from a formula
expandDoubleVerts

Expand terms with '||' notation into separate '|' terms
glmFamily

Generator object for the glmFamily class
fixef

Extract fixed-effects estimates
getME

Extract or Get Generalized Components from a Fitted Mixed Effects Model
hatvalues.merMod

Diagonal elements of the hat matrix
isREML

Check characteristics of models
grouseticks

Data on red grouse ticks from Elston et al. 2001
influence.merMod

Influence Diagnostics for Mixed-Effects Models
glmerLaplaceHandle

Handle for glmerLaplace
isSingular

Test Fitted Model for (Near) Singularity
glmer

Fitting Generalized Linear Mixed-Effects Models
golden-class

Class "golden" and Generator for Golden Search Optimizer Class
isNested

Is f1 nested within f2?
glmer.nb

Fitting Negative Binomial GLMMs
lme4-package

Linear, generalized linear, and nonlinear mixed models
lmer

Fit Linear Mixed-Effects Models
lme4_testlevel

Detect testing level for lme4 examples and tests
merPredD-class

Class "merPredD" - a Dense Predictor Reference Class
lmList4-class

Class "lmList4" of 'lm' Objects on Common Model
lmResp-class

Reference Classes for Response Modules, "(lm|glm|nls|lmer)Resp"
merMod-class

Class "merMod" of Fitted Mixed-Effect Models
lmList

Fit List of lm or glm Objects with a Common Model
lmResp

Generator objects for the response classes
lmerControl

Control of Mixed Model Fitting
mkMerMod

Create a 'merMod' Object
mkReTrms

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

Number of Levels of a Factor or a "merMod" Model
namedList

Self-naming list function
mkRespMod

Create an lmerResp, glmResp or nlsResp instance
mkSimulateTemplate

Make templates suitable for guiding mixed model simulations
nlformula

Manipulate a Nonlinear Model Formula
merPredD

Generator object for the merPredD class
modular

Modular Functions for Mixed Model Fits
mkVarCorr

Make Variance and Correlation Matrices from theta
pvalues

Getting p-values for fitted models
nlmer

Fitting Nonlinear Mixed-Effects Models
plots.thpr

Mixed-Effects Profile Plots (Regular / Density / Pairs)
plot.merMod

Diagnostic Plots for 'merMod' Fits
profile-methods

Profile method for merMod objects
nloptwrap

Wrappers for additional optimizers
nobars

Omit terms separated by vertical bars in a formula
simulate.formula

A simulate Method for formula objects that dispatches based on the Left-Hand Side
predict.merMod

Predictions from a model at new data values
subbars

"Sub[stitute] Bars"
rePCA

PCA of random-effects covariance matrix
sleepstudy

Reaction times in a sleep deprivation study
refitML

Refit a Model by Maximum Likelihood Criterion
refit

Refit a (merMod) Model with a Different Response
ranef

Extract the modes of the random effects
simulate.merMod

Simulate Responses From merMod Object
troubleshooting

Troubleshooting
prt-utilities

Print and Summary Method Utilities for Mixed Effects
residuals.merMod

residuals of merMod objects
sigma

Extract Residual Standard Deviation 'Sigma'
rePos-class

Class "rePos"
rePos

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

Convert between representations of (co-)variance structures
Dyestuff

Yield of dyestuff by batch
GQdk

Sparse Gaussian / Gauss-Hermite Quadrature grid
GHrule

Univariate Gauss-Hermite quadrature rule
Pastes

Paste strength by batch and cask
Arabidopsis

Arabidopsis clipping/fertilization data
VarCorr

Extract Variance and Correlation Components
Penicillin

Variation in penicillin testing
NelderMead

Nelder-Mead Optimization of Parameters, Possibly (Box) Constrained
NelderMead-class

Class "NelderMead" of Nelder-Mead optimizers and its Generator
InstEval

University Lecture/Instructor Evaluations by Students at ETH