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lme4 (version 1.1-29)

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

1.1-29

License

GPL (>= 2)

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Repository

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

Maintainer

Ben Bolker

Last Published

April 7th, 2022

Functions in lme4 (1.1-29)

Extract Variance and Correlation Components

Variation in penicillin testing

University Lecture/Instructor Evaluations by Students at ETH

Paste strength by batch and cask

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

NelderMead-class

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

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

Contagious bovine pleuropneumonia

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

Breakage Angle of Chocolate Cakes

Extract the deviance component list

Deviance Function in Terms of Standard Deviations/Correlations

Dummy variables (experimental)

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

Determine random-effects expressions from a formula

Extract fixed-effects estimates

Yield of dyestuff by batch

Check characteristics of models

Arabidopsis clipping/fertilization data

Verbal Aggression item responses

Extended Convergence Checking

Refit a fitted model with all available optimizers

Generator object for the glmFamily class

glmFamily-class

Class "glmFamily" - a reference class for family

Test Fitted Model for (Near) Singularity

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

add information to data based on a fitted model

Assessing Convergence for Fitted Models

Data on red grouse ticks from Elston et al. 2001

hatvalues.merMod

Diagonal elements of the hat matrix

Fitting Negative Binomial GLMMs

Fitting Generalized Linear Mixed-Effects Models

Attempt to convert grouping variables to factors

expandDoubleVerts

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

glmerLaplaceHandle

Handle for glmerLaplace

Class "golden" and Generator for Golden Search Optimizer Class

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Class "merMod" of Fitted Mixed-Effect Models

Fit Linear Mixed-Effects Models

Class "merPredD" - a Dense Predictor Reference Class

Control of Mixed Model Fitting

Is f1 nested within f2?

Detect testing level for lme4 examples and tests

Linear, generalized linear, and nonlinear mixed models

influence.merMod

Influence Diagnostics for Mixed-Effects Models

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

Manipulate a Nonlinear Model Formula

Generator objects for the response classes

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Make Variance and Correlation Matrices from theta

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

Modular Functions for Mixed Model Fits

Fit List of lm or glm Objects with a Common Model

Create an lmerResp, glmResp or nlsResp instance

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

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

Create a 'merMod' Object

Generator object for the merPredD class

Predictions from a model at new data values

profile-methods

Profile method for merMod objects

Omit terms separated by vertical bars in a formula

Wrappers for additional optimizers

Diagnostic Plots for 'merMod' Fits

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

simulate.formula

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

Extract Residual Standard Deviation 'Sigma'

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

Refit a (merMod) Model with a Different Response

Fitting Nonlinear Mixed-Effects Models

Class "rePos"

residuals.merMod

residuals of merMod objects

PCA of random-effects covariance matrix

Refit a Model by Maximum Likelihood Criterion

simulate.merMod

Simulate Responses From merMod Object

Print and Summary Method Utilities for Mixed Effects

Convert between representations of (co-)variance structures

Reaction times in a sleep deprivation study

Getting p-values for fitted models

troubleshooting

Troubleshooting

Extract the modes of the random effects

"Sub[stitute] Bars"