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lme4 (version 1.1-8)

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

376,257

Version

1.1-8

License

GPL (>= 2)

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Maintainer

Ben Bolker

Last Published

June 22nd, 2015

Functions in lme4 (1.1-8)

GQdk

Sparse Gaussian / Gauss-Hermite Quadrature grid
hatvalues.merMod

Diagonal elements of the hat matrix
lme4-package

Linear, generalized linear, and nonlinear mixed models
confint.merMod

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

Extract the modes of the random effects
VerbAgg

Verbal Aggression item responses
GHrule

Univariate Gauss-Hermite quadrature rule
devcomp

Extract the deviance component list
VarCorr

Extract Variance and Correlation Components
Pastes

Paste strength by batch and cask
lmList4-class

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

"Sub[stitute] Bars"
Penicillin

Variation in penicillin testing
mkReTrms

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

Control of Mixed Model Fitting
sigma

Extract Residual Standard Deviation 'Sigma'
dummy

Dummy variables (experimental)
golden

Generator object for the golden search optimizer class.
merPredD-class

Class "merPredD" - a Dense Predictor Reference Class
glmer.nb

glmer() for Negative Binomial
predict.merMod

Predictions from a model at new data values
lmList

Fit List of lm Objects with a Common Model
mkdevfun

Create Deviance Evaluation Function from Predictor and Response Module
plots.thpr

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

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

Simulate Responses From merMod Object
glmer

Fitting Generalized Linear Mixed-Effects Models
NelderMead

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

Determine random-effects expressions from a formula
cbpp

Contagious bovine pleuropneumonia
pvalues

Getting p-values for fitted models
cake

Breakage Angle of Chocolate Cakes
NelderMead-class

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

Refit a Model by Maximum Likelihood Criterion
golden-class

Class "golden"
Dyestuff

Yield of dyestuff by batch
glmFamily

Generator object for the glmFamily class
isNested

Is f1 nested within f2?
plot.merMod

diagnostic plots for merMod fits
troubleshooting

Troubleshooting
mkMerMod

Create a merMod object
lmResp

Generator objects for the response classes
mkRespMod

Create an lmerResp, glmResp or nlsResp instance
nlmer

Fitting Nonlinear Mixed-Effects Models
residuals.merMod

residuals of merMod objects
rePos-class

Class "rePos"
Arabidopsis

Arabidopsis clipping/fertilization data
fortify

add information to data based on a fitted model
merMod-class

Class "merMod" of Fitted Mixed-Effect Models
expandDoubleVerts

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

Fit Linear Mixed-Effects Models
ngrps

Number of Levels of a Factor or a "merMod" Model
drop1.merMod

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

Check characteristics of models
vcconv

Convert between representations of (co-)variance structures
refit

Refit a (merMod) Model with a Different Response
convergence

Assessing Convergence for Fitted Models
mkSimulateTemplate

Make templates suitable for guiding mixed model simulations
bootMer

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

Make Variance and Correlation Matrices from theta
sleepstudy

Reaction times in a sleep deprivation study
nloptwrap

Wrappers for additional optimizers
glmerLaplaceHandle

Handle for glmerLaplace
glmFamily-class

grouseticks

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

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

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

Modular Functions for Mixed Model Fits
varianceProf

Transform Profile to the variance scale
factorize

Attempt to convert grouping variables to factors
fixef

Extract fixed-effects estimates
plot.lmList4

plots for lmList4 objects
profile-methods

Profile method for merMod objects
lmResp-class

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

University Lecture/Instructor Evaluations by Students at ETH
merPredD

Generator object for the merPredD class
nlformula

Manipulate a Nonlinear Model Formula