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lme4 (version 1.1-6)

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

install.packages('lme4')

Monthly Downloads

389,866

Version

1.1-6

License

GPL (>= 2)

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Maintainer

Ben Bolker

Last Published

April 13th, 2014

Functions in lme4 (1.1-6)

bootMer

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

Dummy variables (experimental)
confint.merMod

Compute confidence intervals on the parameters of an lme4 fit
GQdk

Sparse Gaussian Quadrature grid
Penicillin

Variation in penicillin testing
devcomp

Extract the deviance component list
getME

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

Sparse Gauss-Hermite quadrature grids
fixef

Extract fixed-effects estimates
cake

Breakage Angle of Chocolate Cakes
findbars

Determine random-effects expressions from a formula
VerbAgg

Verbal Aggression item responses
InstEval

University Lecture/Instructor Evaluations by Students at ETH
lmerControl

Control of Mixed Model Fitting
drop1.merMod

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

Extract the modes of the random effects
fortify

add information to data based on a fitted model
Pastes

Paste strength by batch and cask
pvalues

Getting p-values for fitted models
expandDoubleVerts

Expand terms with '||' notation into separate '|' terms
lmList-class

Class "lmList" of 'lm' Objects on Common Model
merPredD

Generator object for the merPredD class
golden

Generator object for the golden search optimizer class.
plots.thpr

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

Create an lmerResp, glmResp or nlsResp instance
varianceProf

Transform to the variance scale
profile-methods

Profile method for merMod objects
golden-class

Class "golden"
NelderMead-class

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

Make Variance and Correlation Matrices from theta
Dyestuff

Yield of dyestuff by batch
simulate.merMod

Simulate responses from a merMod object
NelderMead

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

Modular functions for mixed model fits
cbpp

Contagious bovine pleuropneumonia
mkMerMod

Create a merMod object
sigma

Extract residual standard error
nlformula

Manipulate a nonlinear model formula.
grouseticks

Data on red grouse ticks from Elston et al. 2001
nobars

Omit terms separated by vertical bars in a formula
glmer

Fit Generalized Linear Mixed-Effects Models
lmResp

Generator objects for the response classes
ngrps

Number of levels
lmResp-class

Classes "lmResp", "glmResp", "nlsResp" and "lmerResp"
nlmer

Fit Nonlinear Mixed-Effects Models
residuals.merMod

residuals of merMod objects
subbars

"Sub[stitute] Bars"
rePos

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

Refit a model by maximum likelihood criterion
plot.merMod

diagnostic plots for merMod fits
merPredD-class

Class "merPredD" - a dense predictor reference class
glmFamily-class

lme4-package

Linear, generalized linear, and nonlinear mixed models
merMod-class

Class "merMod" of Fitted Mixed-Effect Models
isNested

Is f1 nested within f2?
sleepstudy

Reaction times in a sleep deprivation study
mkReTrms

Create Z, Lambda, Lind, etc.
refit

Refit a model with a new response, by maximum likelihood criterion
isREML

Check characteristics of models
predict.merMod

Predictions from a model at new data values
mkdevfun

Create a deviance evaluation function from a predictor and a response module
GHrule

Univariate Gauss-Hermite quadrature rule
glmFamily

Generator object for the glmFamily class
glmer.nb

glmer() for Negative Binomial
lmer

Fit Linear Mixed-Effects Models
rePos-class

Class "rePos"
lmList

List of lm Objects with a Common Model
VarCorr

Extract Variance and Correlation Components