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lme4 (version 1.1-15)

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

573,149

Version

1.1-15

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

December 21st, 2017

Functions in lme4 (1.1-15)

Variation in penicillin testing

Extract Variance and Correlation Components

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

Paste strength by batch and cask

University Lecture/Instructor Evaluations by Students at ETH

NelderMead-class

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

Arabidopsis clipping/fertilization data

Yield of dyestuff by batch

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

Verbal Aggression item responses

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

Extended Convergence Checking

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

expandDoubleVerts

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

Attempt to convert grouping variables to factors

Assessing Convergence for Fitted Models

Extract the deviance component list

Determine random-effects expressions from a formula

Extract fixed-effects estimates

glmerLaplaceHandle

Handle for glmerLaplace

Class "golden" and Generator for Golden Search Optimizer Class

Class "merPredD" - a Dense Predictor Reference Class

Generator object for the '>merPredD class

Wrappers for additional optimizers

Omit terms separated by vertical bars in a formula

Fitting Generalized Linear Mixed-Effects Models

Fitting Negative Binomial GLMMs

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

Linear, generalized linear, and nonlinear mixed models

Breakage Angle of Chocolate Cakes

Contagious bovine pleuropneumonia

add information to data based on a fitted model

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Is f1 nested within f2?

Generator objects for the response classes

Data on red grouse ticks from Elston et al. 2001

hatvalues.merMod

Diagonal elements of the hat matrix

Create an lmerResp, glmResp or nlsResp instance

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Manipulate a Nonlinear Model Formula

Fitting Nonlinear Mixed-Effects Models

profile-methods

Profile method for merMod objects

Getting p-values for fitted models

Reaction times in a sleep deprivation study

"Sub[stitute] Bars"

glmFamily-class

Class "glmFamily" - a reference class for family

Generator object for the '>glmFamily class

Fit List of lm Objects with a Common Model

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

Control of Mixed Model Fitting

Class "merMod" of Fitted Mixed-Effect Models

Make Variance and Correlation Matrices from theta

Create Deviance Evaluation Function from Predictor and Response Module

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

Predictions from a model at new data values

Check characteristics of models

plots for lmList4 objects

Diagnostic Plots for 'merMod' Fits

Extract the modes of the random effects

Class "rePos"

troubleshooting

Troubleshooting

Print and Summary Method Utilities for Mixed Effects

Fit Linear Mixed-Effects Models

Modular Functions for Mixed Model Fits

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

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

Refit a (merMod) Model with a Different Response

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

Dummy variables (experimental)

Create a 'merMod' Object

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

Refit a Model by Maximum Likelihood Criterion

residuals.merMod

residuals of merMod objects

Extract Residual Standard Deviation 'Sigma'

simulate.merMod

Simulate Responses From '>merMod Object

Convert between representations of (co-)variance structures