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lme4 (version 1.1-34)

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

544,654

Version

1.1-34

License

GPL (>= 2)

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Repository

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

Maintainer

Ben Bolker

Last Published

July 4th, 2023

Functions in lme4 (1.1-34)

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

Verbal Aggression item responses

Extract the deviance component list

Assessing Convergence for Fitted Models

Refit a fitted model with all available optimizers

Extended Convergence Checking

Deviance Function in Terms of Standard Deviations/Correlations

Breakage Angle of Chocolate Cakes

Contagious bovine pleuropneumonia

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

Dummy variables (experimental)

Generator object for the glmFamily class

Extract fixed-effects estimates

add information to data based on a fitted model

Attempt to convert grouping variables to factors

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Determine random-effects expressions from a formula

glmFamily-class

Class "glmFamily" - a reference class for family

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

expandDoubleVerts

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

Data on red grouse ticks from Elston et al. 2001

Fitting Generalized Linear Mixed-Effects Models

hatvalues.merMod

Diagonal elements of the hat matrix

Fitting Negative Binomial GLMMs

Check characteristics of models

Test Fitted Model for (Near) Singularity

Is f1 nested within f2?

influence.merMod

Influence Diagnostics for Mixed-Effects Models

glmerLaplaceHandle

Handle for glmerLaplace

Class "golden" and Generator for Golden Search Optimizer Class

Linear, generalized linear, and nonlinear mixed models

Control of Mixed Model Fitting

Generator objects for the response classes

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

Fit List of lm or glm Objects with a Common Model

Fit Linear Mixed-Effects Models

Detect testing level for lme4 examples and tests

Class "merMod" of Fitted Mixed-Effect Models

Class "merPredD" - a Dense Predictor Reference Class

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

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Modular Functions for Mixed Model Fits

Manipulate a Nonlinear Model Formula

Generator object for the merPredD class

Fitting Nonlinear Mixed-Effects Models

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

Create a 'merMod' Object

Make Variance and Correlation Matrices from theta

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

Create an lmerResp, glmResp or nlsResp instance

Getting p-values for fitted models

Extract the modes of the random effects

Diagnostic Plots for 'merMod' Fits

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

PCA of random-effects covariance matrix

Wrappers for additional optimizers

Class "rePos"

Predictions from a model at new data values

Omit terms separated by vertical bars in a formula

profile-methods

Profile method for merMod objects

troubleshooting

Troubleshooting

"Sub[stitute] Bars"

simulate.formula

A simulate Method for formula objects that dispatches based on the Left-Hand Side

Refit a Model by Maximum Likelihood Criterion

residuals.merMod

residuals of merMod objects

Extract Residual Standard Deviation 'Sigma'

Reaction times in a sleep deprivation study

simulate.merMod

Simulate Responses From merMod Object

Refit a (merMod) Model with a Different Response

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

Convert between representations of (co-)variance structures

Print and Summary Method Utilities for Mixed Effects

University Lecture/Instructor Evaluations by Students at ETH

Sparse Gaussian / Gauss-Hermite Quadrature grid

Univariate Gauss-Hermite quadrature rule

NelderMead-class

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

Paste strength by batch and cask

Extract Variance and Correlation Components

Yield of dyestuff by batch

Arabidopsis clipping/fertilization data

Variation in penicillin testing

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