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lme4 (version 1.1-12)

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

539,225

Version

1.1-12

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

April 16th, 2016

Functions in lme4 (1.1-12)

Extract Variance and Correlation Components

Yield of dyestuff by batch

Check characteristics of models

Verbal Aggression item responses

Data on red grouse ticks from Elston et al. 2001

Extract the deviance component list

Generator objects for the response classes

University Lecture/Instructor Evaluations by Students at ETH

Attempt to convert grouping variables to factors

Linear, generalized linear, and nonlinear mixed models

Assessing Convergence for Fitted Models

glmFamily-class

Class "glmFamily" - a reference class for family

expandDoubleVerts

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

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

Is f1 nested within f2?

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

Determine random-effects expressions from a formula

Generator object for the glmFamily class

NelderMead-class

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

Modular Functions for Mixed Model Fits

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

add information to data based on a fitted model

glmerLaplaceHandle

Handle for glmerLaplace

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

Univariate Gauss-Hermite quadrature rule

Fitting Nonlinear Mixed-Effects Models

Class "rePos"

Extract fixed-effects estimates

Manipulate a Nonlinear Model Formula

"Sub[stitute] Bars"

Make Variance and Correlation Matrices from theta

Fit Linear Mixed-Effects Models

Create an lmerResp, glmResp or nlsResp instance

Class "merPredD" - a Dense Predictor Reference Class

Create a 'merMod' Object

Create Deviance Evaluation Function from Predictor and Response Module

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

diagnostic plots for merMod fits

Variation in penicillin testing

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

Class "golden" and Generator for Golden Search Optimizer Class

Wrappers for additional optimizers

Sparse Gaussian / Gauss-Hermite Quadrature grid

Extract the modes of the random effects

Getting p-values for fitted models

Transform Profile to the variance scale

simulate.merMod

Simulate Responses From merMod Object

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Extract Residual Standard Deviation 'Sigma'

Fitting Negative Binomial GLMMs

profile-methods

Profile method for merMod objects

residuals.merMod

residuals of merMod objects

Paste strength by batch and cask

troubleshooting

Troubleshooting

Refit a Model by Maximum Likelihood Criterion

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

plots for lmList4 objects

Fit List of lm Objects with a Common Model

Print and Summary Method Utilities for Mixed Effects

Predictions from a model at new data values

Fitting Generalized Linear Mixed-Effects Models

Convert between representations of (co-)variance structures

Reaction times in a sleep deprivation study

Contagious bovine pleuropneumonia

Control of Mixed Model Fitting

Generator object for the merPredD class

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

Omit terms separated by vertical bars in a formula

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

hatvalues.merMod

Diagonal elements of the hat matrix

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

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Refit a (merMod) Model with a Different Response

Breakage Angle of Chocolate Cakes

Class "merMod" of Fitted Mixed-Effect Models

Arabidopsis clipping/fertilization data

Dummy variables (experimental)