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lme4 (version 1.1-8)

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

1.1-8

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

June 22nd, 2015

Functions in lme4 (1.1-8)

Sparse Gaussian / Gauss-Hermite Quadrature grid

hatvalues.merMod

Diagonal elements of the hat matrix

Linear, generalized linear, and nonlinear mixed models

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

Extract the modes of the random effects

Verbal Aggression item responses

Univariate Gauss-Hermite quadrature rule

Extract the deviance component list

Extract Variance and Correlation Components

Paste strength by batch and cask

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

"Sub[stitute] Bars"

Variation in penicillin testing

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

Control of Mixed Model Fitting

Extract Residual Standard Deviation 'Sigma'

Dummy variables (experimental)

Generator object for the golden search optimizer class.

Class "merPredD" - a Dense Predictor Reference Class

glmer() for Negative Binomial

Predictions from a model at new data values

Fit List of lm Objects with a Common Model

Create Deviance Evaluation Function from Predictor and Response Module

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

Omit terms separated by vertical bars in a formula

simulate.merMod

Simulate Responses From merMod Object

Fitting Generalized Linear Mixed-Effects Models

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

Determine random-effects expressions from a formula

Contagious bovine pleuropneumonia

Getting p-values for fitted models

Breakage Angle of Chocolate Cakes

NelderMead-class

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

Refit a Model by Maximum Likelihood Criterion

Class "golden"

Yield of dyestuff by batch

Generator object for the glmFamily class

Is f1 nested within f2?

diagnostic plots for merMod fits

troubleshooting

Troubleshooting

Create a merMod object

Generator objects for the response classes

Create an lmerResp, glmResp or nlsResp instance

Fitting Nonlinear Mixed-Effects Models

residuals.merMod

residuals of merMod objects

Class "rePos"

Arabidopsis clipping/fertilization data

add information to data based on a fitted model

Class "merMod" of Fitted Mixed-Effect Models

expandDoubleVerts

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

Fit Linear Mixed-Effects Models

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

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

Check characteristics of models

Convert between representations of (co-)variance structures

Refit a (merMod) Model with a Different Response

Assessing Convergence for Fitted Models

mkSimulateTemplate

Make templates suitable for guiding mixed model simulations

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

Make Variance and Correlation Matrices from theta

Reaction times in a sleep deprivation study

Wrappers for additional optimizers

glmerLaplaceHandle

Handle for glmerLaplace

glmFamily-class

Class "glmFamily" - a reference class for family

Data on red grouse ticks from Elston et al. 2001

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

Extract or Get Generalized Components from a Fitted Mixed Effects Model

Modular Functions for Mixed Model Fits

Transform Profile to the variance scale

Attempt to convert grouping variables to factors

Extract fixed-effects estimates

plots for lmList4 objects

profile-methods

Profile method for merMod objects

Classes "lmResp", "glmResp", "nlsResp" and "lmerResp"

University Lecture/Instructor Evaluations by Students at ETH

Generator object for the merPredD class

Manipulate a Nonlinear Model Formula