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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 | .prt.methTit Print and Summary Method Utilities for Mixed
Effects
Arabidopsis Arabidopsis clipping/fertilization data
Dyestuff Yield of dyestuff by batch
GHrule Univariate Gauss-Hermite quadrature rule
GQdk Sparse Gaussian / Gauss-Hermite Quadrature grid
InstEval University Lecture/Instructor Evaluations by
Students at ETH
NelderMead-class Class '"NelderMead"' of Nelder-Mead optimizers
and its Generator
Nelder_Mead Nelder-Mead Optimization of Parameters,
Possibly (Box) Constrained
Pastes Paste strength by batch and cask
Penicillin Variation in penicillin testing
VarCorr Extract Variance and Correlation Components
VerbAgg Verbal Aggression item responses
bootMer Model-based (Semi-)Parametric Bootstrap for
Mixed Models
cake Breakage Angle of Chocolate Cakes
cbpp Contagious bovine pleuropneumonia
confint.merMod Compute Confidence Intervals for Parameters of
a [ng]lmer Fit
convergence Assessing Convergence for Fitted Models
devcomp Extract the deviance component list
drop1.merMod Drop all possible single fixed-effect terms
from a mixed effect model
dummy Dummy variables (experimental)
expandDoubleVerts Expand terms with "||" notation into separate
"|" terms
factorize Attempt to convert grouping variables to
factors
findbars Determine random-effects expressions from a
formula
fixef Extract fixed-effects estimates
fortify add information to data based on a fitted model
getME Extract or Get Generalized Components from a
Fitted Mixed Effects Model
glmFamily Generator object for the 'glmFamily' class
glmFamily-class Class '"glmFamily"' - a reference class for
'family'
glmer Fitting Generalized Linear Mixed-Effects Models
glmer.nb Fitting GLMM's for Negative Binomial
glmerLaplaceHandle Handle for 'glmerLaplace'
golden-class Class '"golden"' and Generator for Golden
Search Optimizer Class
grouseticks Data on red grouse ticks from Elston et al.
2001
hatvalues.merMod Diagonal elements of the hat matrix
isNested Is f1 nested within f2?
isREML Check characteristics of models
lmList Fit List of lm Objects with a Common Model
lmList4-class Class "lmList4" of 'lm' Objects on Common Model
lmResp Generator objects for the response classes
lmResp-class Reference Classes for Response Modules,
'"(lm|glm|nls|lmer)Resp"'
lme4-package Linear, generalized linear, and nonlinear mixed
models
lmer Fit Linear Mixed-Effects Models
lmerControl Control of Mixed Model Fitting
merMod-class Class "merMod" of Fitted Mixed-Effect Models
merPredD Generator object for the 'merPredD' class
merPredD-class Class '"merPredD"' - a Dense Predictor
Reference Class
mkMerMod Create a 'merMod' Object
mkParsTemplate Make templates suitable for guiding mixed model
simulations
mkReTrms Make Random Effect Terms: Create Z, Lambda,
Lind, etc.
mkRespMod Create an lmerResp, glmResp or nlsResp instance
mkVarCorr Make Variance and Correlation Matrices from
'theta'
mkdevfun Create Deviance Evaluation Function from
Predictor and Response Module
modular Modular Functions for Mixed Model Fits
ngrps Number of Levels of a Factor or a "merMod"
Model
nlformula Manipulate a Nonlinear Model Formula
nlmer Fitting Nonlinear Mixed-Effects Models
nloptwrap Wrappers for additional optimizers
nobars Omit terms separated by vertical bars in a
formula
plot.lmList4 plots for lmList4 objects
plot.merMod diagnostic plots for merMod fits
predict.merMod Predictions from a model at new data values
profile-methods Profile method for merMod objects
pvalues Getting p-values for fitted models
ranef Extract the modes of the random effects
rePos Generator object for the rePos (random-effects
positions) class
rePos-class Class '"rePos"'
refit Refit a (merMod) Model with a Different
Response
refitML Refit a Model by Maximum Likelihood Criterion
residuals.merMod residuals of merMod objects
sigma Extract Residual Standard Deviation 'Sigma'
simulate.merMod Simulate Responses From 'merMod' Object
sleepstudy Reaction times in a sleep deprivation study
subbars "Sub[stitute] Bars"
troubleshooting Troubleshooting
varianceProf Transform Profile to the variance scale
vcconv Convert between representations of
(co-)variance structures
xyplot.thpr Mixed-Effects Profile Plots (Regular / Density
/ Pairs)
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