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lme4 (version 1.1-19)

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

530,219

Version

1.1-19

License

GPL (>= 2)

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Repository

https://github.com/lme4/lme4/

Maintainer

Ben Bolker

Last Published

November 10th, 2018

Functions in lme4 (1.1-19)

University Lecture/Instructor Evaluations by Students at ETH

Arabidopsis clipping/fertilization data

influence.merMod

Influence Diagnostics for Mixed-Effects Models

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

Yield of dyestuff by batch

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

add information to data based on a fitted model

Is f1 nested within f2?

Paste strength by batch and cask

Extract or Get Generalized Components from a Fitted Mixed Effects Model

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

Breakage Angle of Chocolate Cakes

Generator objects for the response classes

Create a 'merMod' Object

Fitting Generalized Linear Mixed-Effects Models

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

Assessing Convergence for Fitted Models

Determine random-effects expressions from a formula

Extract fixed-effects estimates

expandDoubleVerts

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

Fitting Negative Binomial GLMMs

Attempt to convert grouping variables to factors

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

simulate.merMod

Simulate Responses From '>merMod Object

Reaction times in a sleep deprivation study

glmerLaplaceHandle

Handle for glmerLaplace

Linear, generalized linear, and nonlinear mixed models

Fit Linear Mixed-Effects Models

Make Variance and Correlation Matrices from theta

Modular Functions for Mixed Model Fits

Class "merPredD" - a Dense Predictor Reference Class

Generator object for the '>merPredD class

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

Extract the modes of the random effects

Manipulate a Nonlinear Model Formula

Class "golden" and Generator for Golden Search Optimizer Class

PCA of random-effects covariance matrix

Create an lmerResp, glmResp or nlsResp instance

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

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Class "rePos"

Print and Summary Method Utilities for Mixed Effects

Variation in penicillin testing

Predictions from a model at new data values

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

Convert between representations of (co-)variance structures

residuals.merMod

residuals of merMod objects

Extract Variance and Correlation Components

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

Extended Convergence Checking

Contagious bovine pleuropneumonia

Extract Residual Standard Deviation 'Sigma'

Extract the deviance component list

Deviance function defined in terms of standard deviations/correlations

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

glmFamily-class

Class "glmFamily" - a reference class for family

Generator object for the '>glmFamily class

Dummy variables (experimental)

Check characteristics of models

Data on red grouse ticks from Elston et al. 2001

hatvalues.merMod

Diagonal elements of the hat matrix

Fit List of lm or glm Objects with a Common Model

Test fitted model for (near) singularity

Class "merMod" of Fitted Mixed-Effect Models

Control of Mixed Model Fitting

Fitting Nonlinear Mixed-Effects Models

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

profile-methods

Profile method for merMod objects

Wrappers for additional optimizers

Omit terms separated by vertical bars in a formula

Diagnostic Plots for 'merMod' Fits

Refit a (merMod) Model with a Different Response

Refit a Model by Maximum Likelihood Criterion

Getting p-values for fitted models

"Sub[stitute] Bars"

troubleshooting

Troubleshooting

NelderMead-class

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

Verbal Aggression item responses

Refit a fitted model with all available optimizers