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lme4 (version 1.1-35.2)

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

1.1-35.2

License

GPL (>= 2)

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Repository

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

Maintainer

Ben Bolker

Last Published

March 28th, 2024

Functions in lme4 (1.1-35.2)

Extract the deviance component list

Deviance Function in Terms of Standard Deviations/Correlations

Dummy variables (experimental)

Contagious bovine pleuropneumonia

add information to data based on a fitted model

Extended Convergence Checking

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

hatvalues.merMod

Diagonal elements of the hat matrix

Data on red grouse ticks from Elston et al. 2001

Fitting Generalized Linear Mixed-Effects Models

Verbal Aggression item responses

Fitting Negative Binomial GLMMs

Extract or Get Generalized Components from a Fitted Mixed Effects Model

influence.merMod

Influence Diagnostics for Mixed-Effects Models

Refit a fitted model with all available optimizers

Attempt to convert grouping variables to factors

Breakage Angle of Chocolate Cakes

Class "merPredD" - a Dense Predictor Reference Class

expandDoubleVerts

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

Class "merMod" of Fitted Mixed-Effect Models

Is f1 nested within f2?

Linear, generalized linear, and nonlinear mixed models

Generator object for the glmFamily class

glmerLaplaceHandle

Handle for glmerLaplace

Class "golden" and Generator for Golden Search Optimizer Class

glmFamily-class

Class "glmFamily" - a reference class for family

Determine random-effects expressions from a formula

Fit List of lm or glm Objects with a Common Model

Generator objects for the response classes

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

Fit Linear Mixed-Effects Models

Check characteristics of models

Generator object for the merPredD class

Modular Functions for Mixed Model Fits

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

Create an lmerResp, glmResp or nlsResp instance

Detect testing level for lme4 examples and tests

Create a 'merMod' Object

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Make Variance and Correlation Matrices from theta

Omit terms separated by vertical bars in a formula

Diagnostic Plots for 'merMod' Fits

Control of Mixed Model Fitting

PCA of random-effects covariance matrix

Extract the modes of the random effects

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

Predictions from a model at new data values

Self-naming list function

Manipulate a Nonlinear Model Formula

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

Extract fixed-effects estimates

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

Wrappers for additional optimizers

Test Fitted Model for (Near) Singularity

Fitting Nonlinear Mixed-Effects Models

profile-methods

Profile method for merMod objects

Getting p-values for fitted models

Convert between representations of (co-)variance structures

Refit a Model by Maximum Likelihood Criterion

Refit a (merMod) Model with a Different Response

Class "rePos"

simulate.formula

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

troubleshooting

Troubleshooting

Reaction times in a sleep deprivation study

simulate.merMod

Simulate Responses From merMod Object

Print and Summary Method Utilities for Mixed Effects

"Sub[stitute] Bars"

Extract Residual Standard Deviation 'Sigma'

residuals.merMod

residuals of merMod objects

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

University Lecture/Instructor Evaluations by Students at ETH

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

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

Assessing Convergence for Fitted Models

NelderMead-class

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

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

Extract Variance and Correlation Components

Variation in penicillin testing

Paste strength by batch and cask

Yield of dyestuff by batch

Arabidopsis clipping/fertilization data

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