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lme4 (version 1.1-16)

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

1.1-16

License

GPL (>= 2)

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Repository

https://github.com/lme4/lme4/ http://lme4.r-forge.r-project.org/

Maintainer

Ben Bolker

Last Published

March 28th, 2018

Functions in lme4 (1.1-16)

Univariate Gauss-Hermite quadrature rule

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

Sparse Gaussian / Gauss-Hermite Quadrature grid

Paste strength by batch and cask

Variation in penicillin testing

University Lecture/Instructor Evaluations by Students at ETH

Extract Variance and Correlation Components

Arabidopsis clipping/fertilization data

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

NelderMead-class

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

Yield of dyestuff by batch

Contagious bovine pleuropneumonia

Assessing Convergence for Fitted Models

Extract the deviance component list

Extended Convergence Checking

Verbal Aggression item responses

Breakage Angle of Chocolate Cakes

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

Fitting Generalized Linear Mixed-Effects Models

Attempt to convert grouping variables to factors

Extract or Get Generalized Components from a Fitted Mixed Effects Model

add information to data based on a fitted model

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

Fitting Negative Binomial GLMMs

glmFamily-class

Class "glmFamily" - a reference class for family

expandDoubleVerts

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

Dummy variables (experimental)

Fit List of lm or glm Objects with a Common Model

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

Generator object for the '>glmFamily class

glmerLaplaceHandle

Handle for glmerLaplace

Determine random-effects expressions from a formula

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

Class "golden" and Generator for Golden Search Optimizer Class

Extract fixed-effects estimates

Is f1 nested within f2?

Check characteristics of models

Generator objects for the response classes

Data on red grouse ticks from Elston et al. 2001

Fit Linear Mixed-Effects Models

Linear, generalized linear, and nonlinear mixed models

hatvalues.merMod

Diagonal elements of the hat matrix

Create an lmerResp, glmResp or nlsResp instance

Control of Mixed Model Fitting

Class "merPredD" - a Dense Predictor Reference Class

Class "merMod" of Fitted Mixed-Effect Models

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

Generator object for the '>merPredD class

Create a 'merMod' Object

Diagnostic Plots for 'merMod' Fits

Omit terms separated by vertical bars in a formula

Modular Functions for Mixed Model Fits

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

Predictions from a model at new data values

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

Make Variance and Correlation Matrices from theta

Wrappers for additional optimizers

Manipulate a Nonlinear Model Formula

Refit a Model by Maximum Likelihood Criterion

Fitting Nonlinear Mixed-Effects Models

residuals.merMod

residuals of merMod objects

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

profile-methods

Profile method for merMod objects

Extract Residual Standard Deviation 'Sigma'

Getting p-values for fitted models

simulate.merMod

Simulate Responses From '>merMod Object

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

Convert between representations of (co-)variance structures

Reaction times in a sleep deprivation study

Refit a (merMod) Model with a Different Response

Class "rePos"

"Sub[stitute] Bars"

troubleshooting

Troubleshooting

Extract the modes of the random effects

Print and Summary Method Utilities for Mixed Effects