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lme4 (version 1.1-21)

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')

Monthly Downloads

500,586

Version

1.1-21

License

GPL (>= 2)

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Last Published

March 5th, 2019

Functions in lme4 (1.1-21)

glmFamily-class

glmer

Fitting Generalized Linear Mixed-Effects Models
Arabidopsis

Arabidopsis clipping/fertilization data
modular

Modular Functions for Mixed Model Fits
mkVarCorr

Make Variance and Correlation Matrices from theta
glmer.nb

Fitting Negative Binomial GLMMs
merMod-class

Class "merMod" of Fitted Mixed-Effect Models
cbpp

Contagious bovine pleuropneumonia
checkConv

Extended Convergence Checking
fortify

add information to data based on a fitted model
getME

Extract or Get Generalized Components from a Fitted Mixed Effects Model
Dyestuff

Yield of dyestuff by batch
glmerLaplaceHandle

Handle for glmerLaplace
golden-class

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

Model-based (Semi-)Parametric Bootstrap for Mixed Models
lmList

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

Breakage Angle of Chocolate Cakes
lmList4-class

Class "lmList4" of 'lm' Objects on Common Model
NelderMead

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

Create an lmerResp, glmResp or nlsResp instance
Pastes

Paste strength by batch and cask
mkSimulateTemplate

Make templates suitable for guiding mixed model simulations
influence.merMod

Influence Diagnostics for Mixed-Effects Models
glmFamily

Generator object for the '>glmFamily class
plots.thpr

Mixed-Effects Profile Plots (Regular / Density / Pairs)
isNested

Is f1 nested within f2?
predict.merMod

Predictions from a model at new data values
refit

Refit a (merMod) Model with a Different Response
merPredD-class

Class "merPredD" - a Dense Predictor Reference Class
drop1.merMod

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

University Lecture/Instructor Evaluations by Students at ETH
merPredD

nloptwrap

Wrappers for additional optimizers
nlmer

Fitting Nonlinear Mixed-Effects Models
subbars

"Sub[stitute] Bars"
refitML

Refit a Model by Maximum Likelihood Criterion
nobars

Omit terms separated by vertical bars in a formula
rePCA

PCA of random-effects covariance matrix
plot.merMod

Diagnostic Plots for 'merMod' Fits
Penicillin

Variation in penicillin testing
VarCorr

Extract Variance and Correlation Components
VerbAgg

Verbal Aggression item responses
GQdk

Sparse Gaussian / Gauss-Hermite Quadrature grid
convergence

Assessing Convergence for Fitted Models
lmerControl

Control of Mixed Model Fitting
residuals.merMod

residuals of merMod objects
fixef

Extract fixed-effects estimates
NelderMead-class

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

Extract the deviance component list
allFit

Refit a fitted model with all available optimizers
expandDoubleVerts

Expand terms with '||' notation into separate '|' terms
devfun2

Deviance function defined in terms of standard deviations/correlations
sigma

Extract Residual Standard Deviation 'Sigma'
isREML

Check characteristics of models
dummy

Dummy variables (experimental)
ranef

Extract the modes of the random effects
factorize

Attempt to convert grouping variables to factors
grouseticks

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

Diagonal elements of the hat matrix
lmResp-class

Reference Classes for Response Modules, "(lm|glm|nls|lmer)Resp"
lmResp

Generator objects for the response classes
ngrps

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

Troubleshooting
nlformula

Manipulate a Nonlinear Model Formula
mkReTrms

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

Univariate Gauss-Hermite quadrature rule
rePos-class

Class "rePos"
rePos

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

Reaction times in a sleep deprivation study
prt-utilities

Print and Summary Method Utilities for Mixed Effects
vcconv

Convert between representations of (co-)variance structures
isSingular

Test fitted model for (near) singularity
confint.merMod

Compute Confidence Intervals for Parameters of a [ng]lmer Fit
lme4-package

Linear, generalized linear, and nonlinear mixed models
lmer

Fit Linear Mixed-Effects Models
mkMerMod

Create a 'merMod' Object
findbars

Determine random-effects expressions from a formula
profile-methods

Profile method for merMod objects
simulate.merMod

pvalues

Getting p-values for fitted models