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lme4 (version 1.1-32)

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

1.1-32

License

GPL (>= 2)

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Repository

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

Maintainer

Ben Bolker

Last Published

March 14th, 2023

Functions in lme4 (1.1-32)

University Lecture/Instructor Evaluations by Students at ETH

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

Arabidopsis clipping/fertilization data

NelderMead-class

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

Paste strength by batch and cask

Extract Variance and Correlation Components

Variation in penicillin testing

Yield of dyestuff by batch

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

Deviance Function in Terms of Standard Deviations/Correlations

Extended Convergence Checking

Extract the deviance component list

Assessing Convergence for Fitted Models

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

Contagious bovine pleuropneumonia

Breakage Angle of Chocolate Cakes

Verbal Aggression item responses

Refit a fitted model with all available optimizers

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

Extract fixed-effects estimates

add information to data based on a fitted model

Dummy variables (experimental)

glmFamily-class

Class "glmFamily" - a reference class for family

Generator object for the glmFamily class

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Attempt to convert grouping variables to factors

expandDoubleVerts

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

Determine random-effects expressions from a formula

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

influence.merMod

Influence Diagnostics for Mixed-Effects Models

Check characteristics of models

hatvalues.merMod

Diagonal elements of the hat matrix

Is f1 nested within f2?

glmerLaplaceHandle

Handle for glmerLaplace

Class "golden" and Generator for Golden Search Optimizer Class

Test Fitted Model for (Near) Singularity

Data on red grouse ticks from Elston et al. 2001

Fitting Generalized Linear Mixed-Effects Models

Fitting Negative Binomial GLMMs

Linear, generalized linear, and nonlinear mixed models

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

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

Generator objects for the response classes

Fit List of lm or glm Objects with a Common Model

Class "merPredD" - a Dense Predictor Reference Class

Fit Linear Mixed-Effects Models

Class "merMod" of Fitted Mixed-Effect Models

Control of Mixed Model Fitting

Detect testing level for lme4 examples and tests

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

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Manipulate a Nonlinear Model Formula

Make Variance and Correlation Matrices from theta

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

Create a 'merMod' Object

Modular Functions for Mixed Model Fits

Generator object for the merPredD class

Fitting Nonlinear Mixed-Effects Models

Create an lmerResp, glmResp or nlsResp instance

Diagnostic Plots for 'merMod' Fits

PCA of random-effects covariance matrix

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

Getting p-values for fitted models

Extract the modes of the random effects

Predictions from a model at new data values

Wrappers for additional optimizers

profile-methods

Profile method for merMod objects

Omit terms separated by vertical bars in a formula

Class "rePos"

Extract Residual Standard Deviation 'Sigma'

simulate.formula

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

"Sub[stitute] Bars"

residuals.merMod

residuals of merMod objects

Refit a Model by Maximum Likelihood Criterion

Refit a (merMod) Model with a Different Response

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

troubleshooting

Troubleshooting

Print and Summary Method Utilities for Mixed Effects

Convert between representations of (co-)variance structures

simulate.merMod

Simulate Responses From merMod Object

Reaction times in a sleep deprivation study