lme4 v1.0-5

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by Ben Bolker

Linear mixed-effects models using Eigen and S4

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".

Functions in lme4

Name Description
VerbAgg Verbal Aggression item responses
VarCorr Extract Variance and Correlation Components
cake Breakage angle of chocolate cakes
modular Modular functions for mixed model fits
isNested Is f1 nested within f2?
glmFamily Generator object for the glmFamily class
lmer Fit Linear Mixed-Effects Models
nlformula Manipulate a nonlinear model formula.
lmerControl Control of Mixed Model Fitting
mkRespMod Create an lmerResp, glmResp or nlsResp instance
pvalues Getting p-values for fitted models
rePos-class Class "rePos"
lmList-class Class "lmList" of 'lm' Objects on Common Model
mkReTrms Create Z, Lambda, Lind, etc.
merPredD-class Class "merPredD" - a dense predictor reference class
merPredD Generator object for the merPredD class
findbars Determine random-effects expressions from a formula
lmResp-class Classes "lmResp", "glmResp", "nlsResp" and "lmerResp"
fixef Extract fixed-effects estimates
mkMerMod Create a merMod object
mkdevfun Create a deviance evaluation function from a predictor and a response module
glmer.nb glmer() for Negative Binomial
merMod-class Class "merMod" of Fitted Mixed-Effect Models
grouseticks Data on red grouse ticks from Elston et al. 2001
bootMer Model-based (Semi-)Parametric Bootstrap for Mixed Models
densityplot.thpr densityplot from a mixed-effects profile
golden Generator object for the golden search optimizer class.
lme4-package Linear, generalized linear, and nonlinear mixed models
nobars Omit terms separated by vertical bars in a formula
mkVarCorr Make Variance and Correlation Matrices from theta
glmer Fit Generalized Linear Mixed-Effects Models
InstEval University Lecture/Instructor Evaluations by Students at ETH
lmList List of lm Objects with a Common Model
refit Refit a model with a new response, by maximum likelihood criterion
glmFamily-class Class "glmFamily" - a reference class for family
residuals.merMod residuals of merMod objects
GQN Sparse Gauss-Hermite quadrature grids
simulate.merMod Simulate responses from a merMod object
nlmer Fit Nonlinear Mixed-Effects Models
plot.merMod diagnostic plots for merMod fits
subbars "Sub[stitute] Bars"
sleepstudy Reaction times in a sleep deprivation study
GQdk Sparse Gaussian Quadrature grid
golden-class Class "golden"
cbpp Contagious bovine pleuropneumonia
rePos Generator object for the rePos (random-effects positions) class
sigma Extract residual standard error
NelderMead Generator object for the Nelder-Mead optimizer class.
splom.thpr Profile pairs plot
Penicillin Variation in penicillin testing
Dyestuff Yield of dyestuff by batch
devcomp Extract the deviance component list
fortify add information to data based on a fitted model
getME Extract or Get Generalized Components from a Fitted Mixed Effects Model
varianceProf Transform to the variance scale
predict.merMod Predictions from a model at new data values
ranef Extract the modes of the random effects
refitML Refit a model by maximum likelihood criterion
Pastes Paste strength by batch and cask
GHrule Univariate Gauss-Hermite quadrature rule
NelderMead-class Class "NelderMead"
confint.merMod Compute confidence intervals on the parameters of an lme4 fit
isREML Check characteristics of models
lmResp Generator objects for the response classes
profile-methods Profile method for merMod objects
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Details

Date 2013-10-25
Contact LME4 Authors
LinkingTo Rcpp, RcppEigen
LazyData yes
License GPL (>= 2)
URL https://github.com/lme4/lme4/ http://lme4.r-forge.r-project.org/
BuildVignettes yes
Packaged 2013-10-25 16:46:44 UTC; bolker
NeedsCompilation yes
Repository CRAN
Date/Publication 2013-10-25 21:06:19

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