lme4-package	lme4-package
.makeCC	lmerControl
.prt.aictab	utilities
.prt.call	utilities
.prt.family	utilities
.prt.grps	utilities
.prt.methTit	utilities
.prt.resids	utilities
.prt.VC	utilities
.prt.warn	utilities
.simulateFun	simulate.merMod
allFit	allFit
anova.merMod	merMod-class
anyStructured	isNewMerMod
Arabidopsis	Arabidopsis
as.data.frame.ranef.mer	ranef
as.data.frame.thpr	profile-methods
as.data.frame.VarCorr.merMod	VarCorr
as.function.merMod	merMod-class
bootMer	bootMer
cake	cake
cbpp	cbpp
cbpp2	cbpp
checkConv	checkConv
coef.merMod	merMod-class
confint.merMod	confint.merMod
confint.thpr	confint.merMod
convergence	convergence
cooks.distance.influence.merMod	influence.merMod
cooks.distance.merMod	influence.merMod
cov2sdcor	vcconv
Covariance-class	Covariance-class
Covariance.ar1-class	Covariance-class
Covariance.cs-class	Covariance-class
Covariance.diag-class	Covariance-class
Covariance.us-class	Covariance-class
culcitalogreg	culcitalogreg
culcitalvolume	culcitalvolume
Cv_to_Sv	vcconv
Cv_to_Vv	vcconv
densityplot.thpr	plots.thpr
devcomp	devcomp
devfun2	devfun2
deviance	deviance
deviance.merMod	deviance
df.residual.merMod	merMod-class
dfbeta.influence.merMod	influence.merMod
dfbetas.influence.merMod	influence.merMod
diagnostic.plots	plot.merMod
diagnosticPlots	plot.merMod
diagnostics	plot.merMod
diagnostic_plots	plot.merMod
dotplot.ranef.mer	ranef
drop1.merMod	drop1.merMod
dummy	dummy
Dyestuff	Dyestuff
Dyestuff2	Dyestuff
expandDoubleVerts	reformulas_imports
extractAIC.merMod	merMod-class
factorize	factorize
family.merMod	merMod-class
findbars	reformulas_imports
fitted.merMod	merMod-class
fixed.effects	fixef
fixef	fixef
fixef.merMod	fixef
forceNewMerMod	isNewMerMod
formatVC	utilities
formula.merMod	merMod-class
fortify	fortify
fortify.merMod	fortify
getData	fortify
getData.merMod	fortify
getDoublevertDefault	getDoublevertDefault
getL	getME
getL,merMod-method	getME
getLambda	Covariance-class
getLambda,Covariance.ar1-method	Covariance-class
getLambda,Covariance.cs-method	Covariance-class
getLambda,Covariance.diag-method	Covariance-class
getLambda,Covariance.us-method	Covariance-class
getLambda,merMod-method	Covariance-class
getLambdat.dp	Covariance-class
getLambdat.dp,Covariance.ar1-method	Covariance-class
getLambdat.dp,Covariance.cs-method	Covariance-class
getLambdat.dp,Covariance.diag-method	Covariance-class
getLambdat.dp,Covariance.us-method	Covariance-class
getLambdat.i	Covariance-class
getLambdat.i,Covariance.ar1-method	Covariance-class
getLambdat.i,Covariance.cs-method	Covariance-class
getLambdat.i,Covariance.diag-method	Covariance-class
getLambdat.i,Covariance.us-method	Covariance-class
getLower	Covariance-class
getLower,Covariance.ar1-method	Covariance-class
getLower,Covariance.cs-method	Covariance-class
getLower,Covariance.diag-method	Covariance-class
getLower,Covariance.us-method	Covariance-class
getLower,merMod-method	Covariance-class
getME	getME
getME.merMod	getME
getPar	Covariance-class
getPar,Covariance-method	Covariance-class
getPar,merMod-method	Covariance-class
getParLength	Covariance-class
getParLength,Covariance-method	Covariance-class
getParLength,merMod-method	Covariance-class
getParNames	Covariance-class
getParNames,Covariance.ar1,character,character-method	Covariance-class
getParNames,Covariance.cs,character,character-method	Covariance-class
getParNames,Covariance.diag,character,character-method	Covariance-class
getParNames,Covariance.us,character,character-method	Covariance-class
getParNames,merMod,missing,missing-method	Covariance-class
getProfLower	Covariance-class
getProfLower,Covariance.ar1-method	Covariance-class
getProfLower,Covariance.cs-method	Covariance-class
getProfLower,Covariance.diag-method	Covariance-class
getProfLower,Covariance.us-method	Covariance-class
getProfLower,merMod-method	Covariance-class
getProfPar	Covariance-class
getProfPar,Covariance.ar1-method	Covariance-class
getProfPar,Covariance.cs-method	Covariance-class
getProfPar,Covariance.diag-method	Covariance-class
getProfPar,Covariance.us-method	Covariance-class
getProfPar,merMod-method	Covariance-class
getProfUpper	Covariance-class
getProfUpper,Covariance.ar1-method	Covariance-class
getProfUpper,Covariance.cs-method	Covariance-class
getProfUpper,Covariance.diag-method	Covariance-class
getProfUpper,Covariance.us-method	Covariance-class
getProfUpper,merMod-method	Covariance-class
getReCovs	getReCovs
getSingTol	isSingular
getTheta	Covariance-class
getTheta,Covariance.ar1-method	Covariance-class
getTheta,Covariance.cs-method	Covariance-class
getTheta,Covariance.diag-method	Covariance-class
getTheta,Covariance.us-method	Covariance-class
getTheta,merMod-method	Covariance-class
getThetaIndex	Covariance-class
getThetaIndex,Covariance.ar1-method	Covariance-class
getThetaIndex,Covariance.cs-method	Covariance-class
getThetaIndex,Covariance.diag-method	Covariance-class
getThetaIndex,Covariance.us-method	Covariance-class
getThetaIndexLength	Covariance-class
getThetaIndexLength,Covariance.ar1-method	Covariance-class
getThetaIndexLength,Covariance.cs-method	Covariance-class
getThetaIndexLength,Covariance.diag-method	Covariance-class
getThetaIndexLength,Covariance.us-method	Covariance-class
getThetaLength	Covariance-class
getThetaLength,Covariance.ar1-method	Covariance-class
getThetaLength,Covariance.cs-method	Covariance-class
getThetaLength,Covariance.diag-method	Covariance-class
getThetaLength,Covariance.us-method	Covariance-class
getThetaLength,merMod-method	Covariance-class
getThetaNames	Covariance-class
getThetaNames,Covariance.ar1,character,character-method	Covariance-class
getThetaNames,Covariance.cs,character,character-method	Covariance-class
getThetaNames,Covariance.diag,character,character-method	Covariance-class
getThetaNames,Covariance.us,character,character-method	Covariance-class
getThetaNames,merMod,missing,missing-method	Covariance-class
getUpper	Covariance-class
getUpper,Covariance.ar1-method	Covariance-class
getUpper,Covariance.cs-method	Covariance-class
getUpper,Covariance.diag-method	Covariance-class
getUpper,Covariance.us-method	Covariance-class
getUpper,merMod-method	Covariance-class
getVC	Covariance-class
getVC,Covariance.ar1-method	Covariance-class
getVC,Covariance.cs-method	Covariance-class
getVC,Covariance.diag-method	Covariance-class
getVC,Covariance.us-method	Covariance-class
getVCNames	Covariance-class
getVCNames,Covariance.ar1,character,character-method	Covariance-class
getVCNames,Covariance.cs,character,character-method	Covariance-class
getVCNames,Covariance.diag,character,character-method	Covariance-class
getVCNames,Covariance.us,character,character-method	Covariance-class
getVCNames,merMod,missing,missing-method	Covariance-class
GHrule	GHrule
glFormula	modular
glmer	glmer
glmer.nb	glmer.nb
glmerControl	lmerControl
glmerLaplaceHandle	glmerLaplaceHandle
glmerMod-class	merMod-class
glmFamily	glmFamily
glmFamily-class	glmFamily-class
glmResp	lmResp
glmResp-class	lmResp-class
golden	golden-class
golden-class	golden-class
gopherdat2	gopherdat2
GQdk	GQdk
GQN	GQdk
grouseticks	grouseticks
grouseticks_agg	grouseticks
hatvalues.merMod	hatvalues.merMod
influence.merMod	influence.merMod
initialize,Covariance.ar1-method	Covariance-class
initialize,Covariance.cs-method	Covariance-class
initialize,Covariance.diag-method	Covariance-class
initialize,Covariance.us-method	Covariance-class
InstEval	InstEval
isGLMM	isREML
isGLMM.merMod	isREML
isLMM	isREML
isLMM.merMod	isREML
isNested	reformulas_imports
isNewMerMod	isNewMerMod
isNLMM	isREML
isNLMM.merMod	isREML
isREML	isREML
isREML.merMod	isREML
isSingular	isSingular
isSingular,Covariance.ar1-method	isSingular
isSingular,Covariance.cs-method	isSingular
isSingular,Covariance.diag-method	isSingular
isSingular,Covariance.us-method	isSingular
isSingular,merMod-method	isSingular
isSingular-methods	isSingular
lFormula	modular
llikAIC	utilities
lme4	lme4-package
lme4_testlevel	lme4_testlevel
lmer	lmer
lmerControl	lmerControl
lmerMod-class	merMod-class
lmerResp	lmResp
lmerResp-class	lmResp-class
lmList	lmList
lmList4-class	lmList4-class
lmResp	lmResp
lmResp-class	lmResp-class
log.thpr	profile-methods
logLik.merMod	merMod-class
logProf	profile-methods
mcmcsamp	pvalues
merMod	merMod-class
merMod-class	merMod-class
merPredD	merPredD
merPredD-class	merPredD-class
methTitle	utilities
mkDataTemplate	mkSimulationTemplate
mkGlmerDevfun	modular
mkLmerDevfun	modular
mkMerMod	mkMerMod
mkNewReTrms	mkNewReTrms
mkParsTemplate	mkSimulationTemplate
mkRespMod	mkRespMod
mkReTrms	reformulas_imports
mkVarCorr	mkVarCorr
mlist2vec	vcconv
model.frame.merMod	merMod-class
model.matrix.merMod	merMod-class
modular	modular
namedList	namedList
negative.binomial	glmer.nb
NelderMead	NelderMead-class
NelderMead-class	NelderMead-class
Nelder_Mead	Nelder_Mead
ngrps	ngrps
ngrps.merMod	merMod-class
nlformula	nlformula
nlmer	nlmer
nlmerControl	lmerControl
nlmerMod-class	merMod-class
nlminbwrap	nloptwrap
nloptwrap	nloptwrap
nlsResp	lmResp
nlsResp-class	lmResp-class
nobars	reformulas_imports
nobs	merMod-class
nobs.merMod	merMod-class
optimizeGlmer	modular
optimizeLmer	modular
Pastes	Pastes
Penicillin	Penicillin
plot.lmList	lmList
plot.merMod	plot.merMod
predict.merMod	predict.merMod
print.merMod	merMod-class
print.summary.merMod	summary.merMod
print.VarCorr.merMod	VarCorr
profile-methods	profile-methods
profile.merMod	profile-methods
pvalues	pvalues
qqmath.merMod	plot.merMod
qqmath.ranef.mer	ranef
qqplot	plot.merMod
ranef	ranef
ranef.merMod	ranef
refit	refit
refit.merMod	refit
refitML	refitML
refitML.merMod	refitML
REMLcrit	merMod-class
reOnly	reformulas_imports
rePCA	rePCA
rePos	rePos
rePos-class	rePos-class
residuals.glmResp	residuals.merMod
residuals.lmResp	residuals.merMod
residuals.merMod	residuals.merMod
salamander	salamander
schizophrenia	schizophrenia
sdcor2cov	vcconv
setPar	Covariance-class
setPar,Covariance,numeric-method	Covariance-class
setProfPar	Covariance-class
setProfPar,Covariance.ar1,numeric-method	Covariance-class
setProfPar,Covariance.cs,numeric-method	Covariance-class
setProfPar,Covariance.diag,numeric-method	Covariance-class
setProfPar,Covariance.us,numeric-method	Covariance-class
setTheta	Covariance-class
setTheta,Covariance.ar1,numeric-method	Covariance-class
setTheta,Covariance.cs,numeric-method	Covariance-class
setTheta,Covariance.diag,numeric-method	Covariance-class
setTheta,Covariance.us,numeric-method	Covariance-class
setVC	Covariance-class
setVC,Covariance.ar1,numeric,numeric-method	Covariance-class
setVC,Covariance.cs,numeric,numeric-method	Covariance-class
setVC,Covariance.diag,numeric,numeric-method	Covariance-class
setVC,Covariance.us,numeric,numeric-method	Covariance-class
show,lmList4-method	lmList4-class
show,merMod-method	merMod-class
show.merMod	merMod-class
show.summary.merMod	summary.merMod
sigma	sigma
sigma.merMod	sigma
simulate.formula	simulate.formula
simulate.merMod	simulate.merMod
sleepstudy	sleepstudy
splom.thpr	plots.thpr
subbars	reformulas_imports
summary	summary.merMod
summary.merMod	summary.merMod
Sv_to_Cv	vcconv
terms.merMod	merMod-class
toenail	toenail
troubleshooting	troubleshooting
update.merMod	merMod-class
updateGlmerDevfun	modular
VarCorr	VarCorr
VarCorr.merMod	VarCorr
varianceProf	profile-methods
vcconv	vcconv
vcov.merMod	vcov.merMod
vcov.summary.merMod	vcov.merMod
vec2mlist	vcconv
vec2STlist	vcconv
VerbAgg	VerbAgg
Vv_to_Cv	vcconv
weights.merMod	merMod-class
xyplot.thpr	plots.thpr
