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lme4 (version 1.1-28)

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

578,990

Version

1.1-28

License

GPL (>= 2)

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Repository

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

Maintainer

Ben Bolker

Last Published

February 5th, 2022

Functions in lme4 (1.1-28)

Sparse Gaussian / Gauss-Hermite Quadrature grid

NelderMead-class

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

Univariate Gauss-Hermite quadrature rule

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

Arabidopsis clipping/fertilization data

Paste strength by batch and cask

Yield of dyestuff by batch

University Lecture/Instructor Evaluations by Students at ETH

Extract Variance and Correlation Components

Variation in penicillin testing

Extract the deviance component list

Assessing Convergence for Fitted Models

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

Contagious bovine pleuropneumonia

Extended Convergence Checking

Extract fixed-effects estimates

Refit a fitted model with all available optimizers

Verbal Aggression item responses

Determine random-effects expressions from a formula

add information to data based on a fitted model

Deviance Function in Terms of Standard Deviations/Correlations

Extract or Get Generalized Components from a Fitted Mixed Effects Model

influence.merMod

Influence Diagnostics for Mixed-Effects Models

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

Dummy variables (experimental)

Check characteristics of models

Generator object for the '>glmFamily class

glmFamily-class

Class "glmFamily" - a reference class for family

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

Class "golden" and Generator for Golden Search Optimizer Class

glmerLaplaceHandle

Handle for glmerLaplace

hatvalues.merMod

Diagonal elements of the hat matrix

Data on red grouse ticks from Elston et al. 2001

Breakage Angle of Chocolate Cakes

Test Fitted Model for (Near) Singularity

Detect testing level for lme4 examples and tests

Linear, generalized linear, and nonlinear mixed models

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

Generator objects for the response classes

Fit List of lm or glm Objects with a Common Model

Is f1 nested within f2?

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

Attempt to convert grouping variables to factors

Fitting Negative Binomial GLMMs

Fitting Generalized Linear Mixed-Effects Models

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Make Variance and Correlation Matrices from theta

expandDoubleVerts

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

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

Modular Functions for Mixed Model Fits

Fit Linear Mixed-Effects Models

Manipulate a Nonlinear Model Formula

Control of Mixed Model Fitting

Getting p-values for fitted models

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

Create an lmerResp, glmResp or nlsResp instance

Predictions from a model at new data values

Extract the modes of the random effects

profile-methods

Profile method for merMod objects

Fitting Nonlinear Mixed-Effects Models

Class "merPredD" - a Dense Predictor Reference Class

Class "merMod" of Fitted Mixed-Effect Models

Create a 'merMod' Object

Diagnostic Plots for 'merMod' Fits

Generator object for the '>merPredD class

Wrappers for additional optimizers

Omit terms separated by vertical bars in a formula

simulate.merMod

Simulate Responses From '>merMod Object

PCA of random-effects covariance matrix

Class "rePos"

"Sub[stitute] Bars"

Reaction times in a sleep deprivation study

troubleshooting

Troubleshooting

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

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

Refit a (merMod) Model with a Different Response

simulate.formula

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

Convert between representations of (co-)variance structures

Extract Residual Standard Deviation 'Sigma'

Print and Summary Method Utilities for Mixed Effects

Refit a Model by Maximum Likelihood Criterion

residuals.merMod

residuals of merMod objects