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lme4 (version 1.1-11)

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

1.1-11

License

GPL (>= 2)

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Repository

https://github.com/lme4/lme4/ http://lme4.r-forge.r-project.org/

Maintainer

Ben Bolker

Last Published

February 12th, 2016

Functions in lme4 (1.1-11)

add information to data based on a fitted model

Fit Linear Mixed-Effects Models

hatvalues.merMod

Diagonal elements of the hat matrix

Arabidopsis clipping/fertilization data

Dummy variables (experimental)

Extract or Get Generalized Components from a Fitted Mixed Effects Model

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

Extract Variance and Correlation Components

glmFamily-class

Class "glmFamily" - a reference class for family

Breakage Angle of Chocolate Cakes

Linear, generalized linear, and nonlinear mixed models

Extract the deviance component list

Univariate Gauss-Hermite quadrature rule

Check characteristics of models

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

Predictions from a model at new data values

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

Generator object for the glmFamily class

Manipulate a Nonlinear Model Formula

Verbal Aggression item responses

Paste strength by batch and cask

Class "golden" and Generator for Golden Search Optimizer Class

profile-methods

Profile method for merMod objects

Fitting Generalized Linear Mixed-Effects Models

Extract fixed-effects estimates

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Fitting Negative Binomial GLMMs

Extract Residual Standard Deviation 'Sigma'

Extract the modes of the random effects

Class "merPredD" - a Dense Predictor Reference Class

Fitting Nonlinear Mixed-Effects Models

Data on red grouse ticks from Elston et al. 2001

troubleshooting

Troubleshooting

Class "merMod" of Fitted Mixed-Effect Models

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

Print and Summary Method Utilities for Mixed Effects

simulate.merMod

Simulate Responses From merMod Object

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

Create Deviance Evaluation Function from Predictor and Response Module

Create an lmerResp, glmResp or nlsResp instance

Omit terms separated by vertical bars in a formula

Generator objects for the response classes

Generator object for the merPredD class

Refit a Model by Maximum Likelihood Criterion

Sparse Gaussian / Gauss-Hermite Quadrature grid

plots for lmList4 objects

Control of Mixed Model Fitting

Create a 'merMod' Object

Getting p-values for fitted models

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

residuals.merMod

residuals of merMod objects

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

diagnostic plots for merMod fits

Class "rePos"

Make Variance and Correlation Matrices from theta

Determine random-effects expressions from a formula

expandDoubleVerts

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

Wrappers for additional optimizers

Yield of dyestuff by batch

Is f1 nested within f2?

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

Assessing Convergence for Fitted Models

Modular Functions for Mixed Model Fits

"Sub[stitute] Bars"

Refit a (merMod) Model with a Different Response

glmerLaplaceHandle

Handle for glmerLaplace

Attempt to convert grouping variables to factors

Transform Profile to the variance scale

Variation in penicillin testing

Contagious bovine pleuropneumonia

Fit List of lm Objects with a Common Model

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

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

NelderMead-class

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

University Lecture/Instructor Evaluations by Students at ETH

Reaction times in a sleep deprivation study

Convert between representations of (co-)variance structures