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lme4 (version 1.1-26)

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.packages('lme4')

Monthly Downloads

513,067

Version

1.1-26

License

GPL (>= 2)

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Repository

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

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Last Published

December 1st, 2020

Functions in lme4 (1.1-26)

Extract Variance and Correlation Components

Univariate Gauss-Hermite quadrature rule

Sparse Gaussian / Gauss-Hermite Quadrature grid

NelderMead-class

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

University Lecture/Instructor Evaluations by Students at ETH

Yield of dyestuff by batch

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

Arabidopsis clipping/fertilization data

Paste strength by batch and cask

Variation in penicillin testing

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

Breakage Angle of Chocolate Cakes

Contagious bovine pleuropneumonia

glmFamily-class

Class "glmFamily" - a reference class for family

Extended Convergence Checking

Generator object for the '>glmFamily class

Attempt to convert grouping variables to factors

expandDoubleVerts

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

Is f1 nested within f2?

Determine random-effects expressions from a formula

influence.merMod

Influence Diagnostics for Mixed-Effects Models

Verbal Aggression item responses

Extract fixed-effects estimates

Class "merMod" of Fitted Mixed-Effect Models

Refit a fitted model with all available optimizers

Fitting Negative Binomial GLMMs

Class "merPredD" - a Dense Predictor Reference Class

Fitting Generalized Linear Mixed-Effects Models

Extract the deviance component list

Fit Linear Mixed-Effects Models

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

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

Check characteristics of models

Modular Functions for Mixed Model Fits

Fit List of lm or glm Objects with a Common Model

Test Fitted Model for (Near) Singularity

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

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Make Variance and Correlation Matrices from theta

Diagnostic Plots for 'merMod' Fits

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

"Sub[stitute] Bars"

Wrappers for additional optimizers

Control of Mixed Model Fitting

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

Generator objects for the response classes

simulate.merMod

Simulate Responses From '>merMod Object

Print and Summary Method Utilities for Mixed Effects

Reaction times in a sleep deprivation study

Omit terms separated by vertical bars in a formula

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

Deviance Function in Terms of Standard Deviations/Correlations

Create an lmerResp, glmResp or nlsResp instance

Class "golden" and Generator for Golden Search Optimizer Class

Dummy variables (experimental)

Linear, generalized linear, and nonlinear mixed models

Predictions from a model at new data values

glmerLaplaceHandle

Handle for glmerLaplace

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

add information to data based on a fitted model

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Assessing Convergence for Fitted Models

troubleshooting

Troubleshooting

Detect testing level for lme4 examples and tests

Extract Residual Standard Deviation 'Sigma'

profile-methods

Profile method for merMod objects

Convert between representations of (co-)variance structures

Class "rePos"

hatvalues.merMod

Diagonal elements of the hat matrix

Create a 'merMod' Object

PCA of random-effects covariance matrix

Manipulate a Nonlinear Model Formula

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

Data on red grouse ticks from Elston et al. 2001

Generator object for the '>merPredD class

Refit a (merMod) Model with a Different Response

Fitting Nonlinear Mixed-Effects Models

Getting p-values for fitted models

Refit a Model by Maximum Likelihood Criterion

Extract the modes of the random effects

residuals.merMod

residuals of merMod objects

simulate.formula

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