nlme: Linear and Nonlinear Mixed Effects Models

Fit and compare Gaussian linear and nonlinear mixed-effects models.

Install the latest version of this package by entering the following in R:
AuthorJosé Pinheiro [aut] (S version), Douglas Bates [aut] (up to 2007), Saikat DebRoy [ctb] (up to 2002), Deepayan Sarkar [ctb] (up to 2005), EISPACK authors [ctb] (src/rs.f), Siem Heisterkamp [ctb] (Author fixed sigma), Bert Van Willigen [ctb] (Programmer fixed sigma), R-core [aut, cre]
Date of publication2017-02-06 21:34:58
MaintainerR-core <>
LicenseGPL (>= 2) | file LICENCE

View on CRAN

Man pages

ACF: Autocorrelation Function

ACF.gls: Autocorrelation Function for gls Residuals

ACF.lme: Autocorrelation Function for lme Residuals

Alfalfa: Split-Plot Experiment on Varieties of Alfalfa

allCoef: Extract Coefficients from a Set of Objects

anova.gls: Compare Likelihoods of Fitted Objects

anova.lme: Compare Likelihoods of Fitted Objects

as.matrix.corStruct: Matrix of a corStruct Object

as.matrix.pdMat: Matrix of a pdMat Object

as.matrix.reStruct: Matrices of an reStruct Object

asOneFormula: Combine Formulas of a Set of Objects

Assay: Bioassay on Cell Culture Plate

asTable: Convert groupedData to a matrix

augPred: Augmented Predictions

balancedGrouped: Create a groupedData object from a matrix

bdf: Language scores

BodyWeight: Rat weight over time for different diets

Cefamandole: Pharmacokinetics of Cefamandole

Coef: Assign Values to Coefficients

coef.corStruct: Coefficients of a corStruct Object

coef.gnls: Extract gnls Coefficients

coef.lme: Extract lme Coefficients

coef.lmList: Extract lmList Coefficients

coef.modelStruct: Extract modelStruct Object Coefficients

coef.pdMat: pdMat Object Coefficients

coef.reStruct: reStruct Object Coefficients

coef.varFunc: varFunc Object Coefficients

collapse: Collapse According to Groups

collapse.groupedData: Collapse a groupedData Object

compareFits: Compare Fitted Objects

comparePred: Compare Predictions

corAR1: AR(1) Correlation Structure

corARMA: ARMA(p,q) Correlation Structure

corCAR1: Continuous AR(1) Correlation Structure

corClasses: Correlation Structure Classes

corCompSymm: Compound Symmetry Correlation Structure

corExp: Exponential Correlation Structure

corFactor: Factor of a Correlation Matrix

corFactor.corStruct: Factor of a corStruct Object Matrix

corGaus: Gaussian Correlation Structure

corLin: Linear Correlation Structure

corMatrix: Extract Correlation Matrix

corMatrix.corStruct: Matrix of a corStruct Object

corMatrix.pdMat: Extract Correlation Matrix from a pdMat Object

corMatrix.reStruct: Extract Correlation Matrix from Components of an reStruct...

corNatural: General correlation in natural parameterization

corRatio: Rational Quadratic Correlation Structure

corSpatial: Spatial Correlation Structure

corSpher: Spherical Correlation Structure

corSymm: General Correlation Structure

Covariate: Assign Covariate Values

Covariate.varFunc: Assign varFunc Covariate

Dialyzer: High-Flux Hemodialyzer

Dim: Extract Dimensions from an Object

Dim.corSpatial: Dimensions of a corSpatial Object

Dim.corStruct: Dimensions of a corStruct Object

Dim.pdMat: Dimensions of a pdMat Object

Earthquake: Earthquake Intensity

ergoStool: Ergometrics experiment with stool types

Extract.pdMat: Subscript a pdMat Object

Fatigue: Cracks caused by metal fatigue

fdHess: Finite difference Hessian

fitted.glsStruct: Calculate glsStruct Fitted Values

fitted.gnlsStruct: Calculate gnlsStruct Fitted Values

fitted.lme: Extract lme Fitted Values

fitted.lmeStruct: Calculate lmeStruct Fitted Values

fitted.lmList: Extract lmList Fitted Values

fitted.nlmeStruct: Calculate nlmeStruct Fitted Values

fixed.effects: Extract Fixed Effects

fixef.lmList: Extract lmList Fixed Effects

formula.pdBlocked: Extract pdBlocked Formula

formula.pdMat: Extract pdMat Formula

formula.reStruct: Extract reStruct Object Formula

gapply: Apply a Function by Groups

Gasoline: Refinery yield of gasoline

getCovariate: Extract Covariate from an Object

getCovariate.corStruct: Extract corStruct Object Covariate Extract Data Frame Covariate

getCovariateFormula: Extract Covariates Formula

getCovariate.varFunc: Extract varFunc Covariate

getData: Extract Data from an Object

getData.gls: Extract gls Object Data

getData.lme: Extract lme Object Data

getData.lmList: Extract lmList Object Data

getGroups: Extract Grouping Factors from an Object

getGroups.corStruct: Extract corStruct Groups Extract Groups from a Data Frame

getGroupsFormula: Extract Grouping Formula

getGroups.gls: Extract gls Object Groups

getGroups.lme: Extract lme Object Groups

getGroups.lmList: Extract lmList Object Groups

getGroups.varFunc: Extract varFunc Groups

getResponse: Extract Response Variable from an Object

getResponseFormula: Extract Formula Specifying Response Variable

getVarCov: Extract variance-covariance matrix

gls: Fit Linear Model Using Generalized Least Squares

glsControl: Control Values for gls Fit

gls-internal: Auxiliary functions used by gls

glsObject: Fitted gls Object

glsStruct: Generalized Least Squares Structure

Glucose: Glucose levels over time

Glucose2: Glucose Levels Following Alcohol Ingestion

gnls: Fit Nonlinear Model Using Generalized Least Squares

gnlsControl: Control Values for gnls Fit

gnlsObject: Fitted gnls Object

gnlsStruct: Generalized Nonlinear Least Squares Structure

groupedData: Construct a groupedData Object

gsummary: Summarize by Groups

Gun: Methods for firing naval guns

IGF: Radioimmunoassay of IGF-I Protein

Initialize: Initialize Object

Initialize.corStruct: Initialize corStruct Object

Initialize.glsStruct: Initialize a glsStruct Object

Initialize.lmeStruct: Initialize an lmeStruct Object

Initialize.reStruct: Initialize reStruct Object

Initialize.varFunc: Initialize varFunc Object

intervals: Confidence Intervals on Coefficients

intervals.gls: Confidence Intervals on gls Parameters

intervals.lme: Confidence Intervals on lme Parameters

intervals.lmList: Confidence Intervals on lmList Coefficients

isBalanced: Check a Design for Balance

isInitialized: Check if Object is Initialized

LDEsysMat: Generate system matrix for LDEs

lme: Linear Mixed-Effects Models

lmeControl: Specifying Control Values for lme Fit

lme.groupedData: LME fit from groupedData Object

lme.lmList: LME fit from lmList Object

lmeObject: Fitted lme Object

lmeStruct: Linear Mixed-Effects Structure

lmList: List of lm Objects with a Common Model

lmList.groupedData: lmList Fit from a groupedData Object

logDet: Extract the Logarithm of the Determinant

logDet.corStruct: Extract corStruct Log-Determinant

logDet.pdMat: Extract Log-Determinant from a pdMat Object

logDet.reStruct: Extract reStruct Log-Determinants

logLik.corStruct: Extract corStruct Log-Likelihood

logLik.glsStruct: Log-Likelihood of a glsStruct Object

logLik.gnls: Log-Likelihood of a gnls Object

logLik.gnlsStruct: Log-Likelihood of a gnlsStruct Object

logLik.lme: Log-Likelihood of an lme Object

logLik.lmeStruct: Log-Likelihood of an lmeStruct Object

logLik.lmList: Log-Likelihood of an lmList Object

logLik.reStruct: Calculate reStruct Log-Likelihood

logLik.varFunc: Extract varFunc logLik

Machines: Productivity Scores for Machines and Workers

MathAchieve: Mathematics achievement scores

MathAchSchool: School demographic data for MathAchieve

Matrix: Assign Matrix Values

Matrix.pdMat: Assign Matrix to a pdMat or pdBlocked Object

Matrix.reStruct: Assign reStruct Matrices

Meat: Tenderness of meat

Milk: Protein content of cows' milk

model.matrix.reStruct: reStruct Model Matrix

Muscle: Contraction of heart muscle sections

Names: Names Associated with an Object

Names.formula: Extract Names from a formula

Names.pdBlocked: Names of a pdBlocked Object

Names.pdMat: Names of a pdMat Object

Names.reStruct: Names of an reStruct Object

needUpdate: Check if Update is Needed

needUpdate.modelStruct: Check if a modelStruct Object Needs Updating

Nitrendipene: Assay of nitrendipene

nlme: Nonlinear Mixed-Effects Models

nlmeControl: Control Values for nlme Fit

nlme.nlsList: NLME fit from nlsList Object

nlmeObject: Fitted nlme Object

nlmeStruct: Nonlinear Mixed-Effects Structure

nlsList: List of nls Objects with a Common Model

nlsList.selfStart: nlsList Fit from a selfStart Function

Oats: Split-plot Experiment on Varieties of Oats

Orthodont: Growth curve data on an orthdontic measurement

Ovary: Counts of Ovarian Follicles

Oxboys: Heights of Boys in Oxford

Oxide: Variability in Semiconductor Manufacturing

pairs.compareFits: Pairs Plot of compareFits Object

pairs.lme: Pairs Plot of an lme Object

pairs.lmList: Pairs Plot of an lmList Object

PBG: Effect of Phenylbiguanide on Blood Pressure

pdBlocked: Positive-Definite Block Diagonal Matrix

pdClasses: Positive-Definite Matrix Classes

pdCompSymm: Positive-Definite Matrix with Compound Symmetry Structure

pdConstruct: Construct pdMat Objects

pdConstruct.pdBlocked: Construct pdBlocked Objects

pdDiag: Diagonal Positive-Definite Matrix

pdFactor: Square-Root Factor of a Positive-Definite Matrix

pdFactor.reStruct: Extract Square-Root Factor from Components of an reStruct...

pdIdent: Multiple of the Identity Positive-Definite Matrix

pdLogChol: General Positive-Definite Matrix

pdMat: Positive-Definite Matrix

pdMatrix: Extract Matrix or Square-Root Factor from a pdMat Object

pdMatrix.reStruct: Extract Matrix or Square-Root Factor from Components of an...

pdNatural: General Positive-Definite Matrix in Natural Parametrization

pdSymm: General Positive-Definite Matrix

Phenobarb: Phenobarbitol Kinetics

phenoModel: Model function for the Phenobarb data

Pixel: X-ray pixel intensities over time

plot.ACF: Plot an ACF Object

plot.augPred: Plot an augPred Object

plot.compareFits: Plot a compareFits Object

plot.gls: Plot a gls Object

plot.intervals.lmList: Plot lmList Confidence Intervals

plot.lme: Plot an lme or nls object

plot.lmList: Plot an lmList Object

plot.nffGroupedData: Plot an nffGroupedData Object

plot.nfnGroupedData: Plot an nfnGroupedData Object

plot.nmGroupedData: Plot an nmGroupedData Object

plot.ranef.lme: Plot a ranef.lme Object

plot.ranef.lmList: Plot a ranef.lmList Object

plot.Variogram: Plot a Variogram Object

pooledSD: Extract Pooled Standard Deviation

predict.gls: Predictions from a gls Object

predict.gnls: Predictions from a gnls Object

predict.lme: Predictions from an lme Object

predict.lmList: Predictions from an lmList Object

predict.nlme: Predictions from an nlme Object

print.summary.pdMat: Print a summary.pdMat Object

print.varFunc: Print a varFunc Object

qqnorm.gls: Normal Plot of Residuals from a gls Object

qqnorm.lme: Normal Plot of Residuals or Random Effects from an lme Object

Quinidine: Quinidine Kinetics

quinModel: Model function for the Quinidine data

Rail: Evaluation of Stress in Railway Rails

random.effects: Extract Random Effects

ranef.lme: Extract lme Random Effects

ranef.lmList: Extract lmList Random Effects

RatPupWeight: The weight of rat pups

recalc: Recalculate Condensed Linear Model Object

recalc.corStruct: Recalculate for corStruct Object

recalc.modelStruct: Recalculate for a modelStruct Object

recalc.reStruct: Recalculate for an reStruct Object

recalc.varFunc: Recalculate for varFunc Object

Relaxin: Assay for Relaxin

Remifentanil: Pharmacokinetics of remifentanil

residuals.gls: Extract gls Residuals

residuals.glsStruct: Calculate glsStruct Residuals

residuals.gnlsStruct: Calculate gnlsStruct Residuals

residuals.lme: Extract lme Residuals

residuals.lmeStruct: Calculate lmeStruct Residuals

residuals.lmList: Extract lmList Residuals

residuals.nlmeStruct: Calculate nlmeStruct Residuals

reStruct: Random Effects Structure

simulate.lme: Simulate Results from 'lme' Models

solve.pdMat: Calculate Inverse of a Positive-Definite Matrix

solve.reStruct: Apply Solve to an reStruct Object

Soybean: Growth of soybean plants

splitFormula: Split a Formula

Spruce: Growth of Spruce Trees

summary.corStruct: Summarize a corStruct Object

summary.gls: Summarize a Generalized Least Squares 'gls' Object

summary.lme: Summarize an lme Object

summary.lmList: Summarize an lmList Object

summary.modelStruct: Summarize a modelStruct Object

summary.nlsList: Summarize an nlsList Object

summary.pdMat: Summarize a pdMat Object

summary.varFunc: Summarize varFunc Object

Tetracycline1: Pharmacokinetics of tetracycline

Tetracycline2: Pharmacokinetics of tetracycline

update.modelStruct: Update a modelStruct Object

update.varFunc: Update varFunc Object

varClasses: Variance Function Classes

varComb: Combination of Variance Functions

varConstPower: Constant Plus Power Variance Function

VarCorr: Extract variance and correlation components

varExp: Exponential Variance Function

varFixed: Fixed Variance Function

varFunc: Variance Function Structure

varIdent: Constant Variance Function

Variogram: Calculate Semi-variogram

Variogram.corExp: Calculate Semi-variogram for a corExp Object

Variogram.corGaus: Calculate Semi-variogram for a corGaus Object

Variogram.corLin: Calculate Semi-variogram for a corLin Object

Variogram.corRatio: Calculate Semi-variogram for a corRatio Object

Variogram.corSpatial: Calculate Semi-variogram for a corSpatial Object

Variogram.corSpher: Calculate Semi-variogram for a corSpher Object

Variogram.default: Calculate Semi-variogram

Variogram.gls: Calculate Semi-variogram for Residuals from a gls Object

Variogram.lme: Calculate Semi-variogram for Residuals from an lme Object

varPower: Power Variance Function

varWeights: Extract Variance Function Weights

varWeights.glsStruct: Variance Weights for glsStruct Object

varWeights.lmeStruct: Variance Weights for lmeStruct Object

Wafer: Modeling of Analog MOS Circuits

Wheat: Yields by growing conditions

Wheat2: Wheat Yield Trials


ACF Man page
ACF.gls Man page
ACF.lme Man page
Alfalfa Man page
allCoef Man page
anova.gls Man page
anova.lme Man page Man page
as.matrix.corStruct Man page
as.matrix.pdMat Man page
as.matrix.reStruct Man page
asOneFormula Man page
Assay Man page
asTable Man page
asTable.groupedData Man page
augPred Man page
augPred.gls Man page
augPred.lme Man page
augPred.lmList Man page
balancedGrouped Man page
bdf Man page
BodyWeight Man page
Cefamandole Man page
coef<- Man page
coef<-.corAR1 Man page
coef.corAR1 Man page
coef<-.corARMA Man page
coef.corARMA Man page
coef.corARMAd Man page
coef<-.corCAR1 Man page
coef.corCAR1 Man page
coef<-.corCompSymm Man page
coef.corCompSymm Man page
coef<-.corHF Man page
coef.corHF Man page
coef<-.corIdent Man page
coef.corIdent Man page
coef<-.corLin Man page
coef.corLin Man page
coef<-.corNatural Man page
coef.corNatural Man page
coef<-.corSpatial Man page
coef.corSpatial Man page
coef<-.corSpher Man page
coef.corSpher Man page
coef<-.corStruct Man page
coef.corStruct Man page
coef<-.corSymm Man page
coef.corSymm Man page
coefficients<- Man page
coef.gnls Man page
coef.lme Man page
coef.lmList Man page
coef<-.modelStruct Man page
coef.modelStruct Man page
coef<-.pdBlocked Man page
coef.pdBlocked Man page
coef.pdCompSymm Man page
coef.pdDiag Man page
coef.pdIdent Man page
coef<-.pdMat Man page
coef.pdMat Man page
coef.pdNatural Man page
coef.pdSymm Man page
coef<-.reStruct Man page
coef.reStruct Man page
coef.summary.gls Man page
coef.summary.lme Man page
coef.summary.nlsList Man page
coef<-.varComb Man page
coef.varComb Man page
coef<-.varConstPower Man page
coef.varConstPower Man page
coef<-.varExp Man page
coef.varExp Man page
coef<-.varFixed Man page
coef.varFixed Man page
coef.varFunc Man page
coef<-.varIdent Man page
coef.varIdent Man page
coef<-.varPower Man page
coef.varPower Man page
collapse Man page
collapse.groupedData Man page
compareFits Man page
comparePred Man page
comparePred.gls Man page
comparePred.lme Man page
comparePred.lmList Man page
corAR1 Man page
corARMA Man page
corCAR1 Man page
corClasses Man page
corCompSymm Man page
corExp Man page
corFactor Man page
corFactor.compSymm Man page
corFactor.corAR1 Man page
corFactor.corARMA Man page
corFactor.corCAR1 Man page
corFactor.corNatural Man page
corFactor.corSpatial Man page
corFactor.corStruct Man page
corFactor.corSymm Man page
corGaus Man page
corIdent Man page
corLin Man page
corMatrix Man page
corMatrix.compSymm Man page
corMatrix.corAR1 Man page
corMatrix.corARMA Man page
corMatrix.corCAR1 Man page
corMatrix.corCompSymm Man page
corMatrix.corIdent Man page
corMatrix.corNatural Man page
corMatrix.corSpatial Man page
corMatrix.corStruct Man page
corMatrix.corSymm Man page
corMatrix.pdBlocked Man page
corMatrix.pdCompSymm Man page
corMatrix.pdDiag Man page
corMatrix.pdIdent Man page
corMatrix.pdMat Man page
corMatrix.pdSymm Man page
corMatrix.reStruct Man page
corNatural Man page
corRatio Man page
corSpatial Man page
corSpher Man page
corStruct Man page
corSymm Man page
covariate<- Man page
covariate<-.varFunc Man page
Dialyzer Man page
Dim Man page
Dim.corSpatial Man page
Dim.corStruct Man page
Dim.default Man page
Dim.pdCompSymm Man page
Dim.pdDiag Man page
Dim.pdIdent Man page
Dim.pdMat Man page
Dim.pdNatural Man page
Dim.pdSymm Man page
Earthquake Man page
ergoStool Man page
Fatigue Man page
fdHess Man page
fitted.glsStruct Man page
fitted.gnlsStruct Man page
fitted.lme Man page
fitted.lmeStruct Man page
fitted.lmList Man page
fitted.nlmeStruct Man page
fixed.effects Man page
fixed.effects.lmList Man page
fixef Man page
fixef.lmList Man page
formula.pdBlocked Man page
formula.pdMat Man page
formula.reStruct Man page
gapply Man page
Gasoline Man page
getCovariate Man page
getCovariate.corSpatial Man page
getCovariate.corStruct Man page Man page
getCovariateFormula Man page
getCovariate.varFunc Man page
getData Man page
getData.gls Man page
getData.gnls Man page
getData.lme Man page
getData.lmList Man page
getData.nlme Man page
getData.nls Man page
getGroups Man page
getGroups.corStruct Man page Man page
getGroupsFormula Man page
getGroupsFormula.default Man page
getGroupsFormula.gls Man page
getGroupsFormula.lme Man page
getGroupsFormula.lmList Man page
getGroupsFormula.reStruct Man page
getGroups.gls Man page
getGroups.lme Man page
getGroups.lmList Man page
getGroups.varFunc Man page
getResponse Man page Man page
getResponseFormula Man page
getVarCov Man page
getVarCov.gls Man page
getVarCov.lme Man page
gls Man page
glsApVar Man page
glsControl Man page
glsEstimate Man page
glsObject Man page
glsStruct Man page
Glucose Man page
Glucose2 Man page
gnls Man page
gnlsControl Man page
gnlsObject Man page
gnlsStruct Man page
groupedData Man page
[.groupedData Man page
gsummary Man page
Gun Man page
IGF Man page
Initialize Man page
Initialize.corAR1 Man page
Initialize.corARMA Man page
Initialize.corCAR1 Man page
Initialize.corCompSymm Man page
Initialize.corHF Man page
Initialize.corIdent Man page
Initialize.corLin Man page
Initialize.corNatural Man page
Initialize.corSpatial Man page
Initialize.corSpher Man page
Initialize.corStruct Man page
Initialize.corSymm Man page
Initialize.glsStruct Man page
Initialize.gnlsStruct Man page
Initialize.lmeStruct Man page
Initialize.reStruct Man page
Initialize.varComb Man page
Initialize.varConstPower Man page
Initialize.varExp Man page
Initialize.varFixed Man page
Initialize.varFunc Man page
Initialize.varIdent Man page
Initialize.varPower Man page
intervals Man page
intervals.gls Man page
intervals.lme Man page
intervals.lmList Man page
isBalanced Man page
isBalanced.groupedData Man page
isInitialized Man page
isInitialized.pdBlocked Man page
isInitialized.pdMat Man page
LDEsysMat Man page
lme Man page
lmeControl Man page
lme.formula Man page
lme.groupedData Man page
lme.lmList Man page
lmeObject Man page
lmeStruct Man page
lmList Man page
lmList.formula Man page
lmList.groupedData Man page
logDet Man page
logDet.corIdent Man page
logDet.corStruct Man page
logDet.pdBlocked Man page
logDet.pdCompSymm Man page
logDet.pdDiag Man page
logDet.pdIdent Man page
logDet.pdMat Man page
logDet.pdNatural Man page
logDet.pdSymm Man page
logDet.reStruct Man page
logLik.corStruct Man page
logLik.gls Man page
logLik.glsStruct Man page
logLik.gnls Man page
logLik.gnlsStruct Man page
logLik.lme Man page
logLik.lmeStruct Man page
logLik.lmeStructInt Man page
logLik.lmList Man page
logLik.reStruct Man page
logLik.varComb Man page
logLik.varFunc Man page
Machines Man page
MathAchieve Man page
MathAchSchool Man page
matrix<- Man page
matrix<-.pdBlocked Man page
matrix<-.pdMat Man page
matrix<-.reStruct Man page
Meat Man page
Milk Man page
model.matrix.reStruct Man page
Muscle Man page
Names Man page
Names<- Man page
Names.formula Man page
Names.listForm Man page
Names<-.pdBlocked Man page
Names.pdBlocked Man page
Names<-.pdMat Man page
Names.pdMat Man page
Names<-.reStruct Man page
Names.reStruct Man page
needUpdate Man page
needUpdate.corStruct Man page
needUpdate.default Man page
needUpdate.modelStruct Man page
needUpdate.reStruct Man page
needUpdate.varComb Man page
needUpdate.varIdent Man page
nfGroupedData Man page
Nitrendipene Man page
nlme Man page
nlmeControl Man page
nlme.formula Man page
nlme.nlsList Man page
nlmeObject Man page
nlmeStruct Man page
nlsList Man page
nlsList.formula Man page
nlsList.selfStart Man page
nmGroupedData Man page
Oats Man page
Orthodont Man page
Ovary Man page
Oxboys Man page
Oxide Man page
pairs.compareFits Man page
pairs.lme Man page
pairs.lmList Man page
PBG Man page
pdBlocked Man page
[.pdBlocked Man page
pdClasses Man page
pdCompSymm Man page
pdConstruct Man page
pdConstruct.pdBlocked Man page
pdConstruct.pdCompSymm Man page
pdConstruct.pdDiag Man page
pdConstruct.pdIdent Man page
pdConstruct.pdLogChol Man page
pdConstruct.pdMat Man page
pdConstruct.pdNatural Man page
pdConstruct.pdSymm Man page
pdDiag Man page
pdFactor Man page
pdFactor.pdBlocked Man page
pdFactor.pdCompSymm Man page
pdFactor.pdDiag Man page
pdFactor.pdIdent Man page
pdFactor.pdLogChol Man page
pdFactor.pdMat Man page
pdFactor.pdNatural Man page
pdFactor.pdSymm Man page
pdFactor.reStruct Man page
pdIdent Man page
pdLogChol Man page
pdMat Man page
[<-.pdMat Man page
[.pdMat Man page
pdMatrix Man page
pdMatrix.pdBlocked Man page
pdMatrix.pdCompSymm Man page
pdMatrix.pdDiag Man page
pdMatrix.pdIdent Man page
pdMatrix.pdMat Man page
pdMatrix.pdNatural Man page
pdMatrix.pdSymm Man page
pdMatrix.reStruct Man page
pdNatural Man page
pdSymm Man page
Phenobarb Man page
phenoModel Man page
Pixel Man page
plot.ACF Man page
plot.augPred Man page
plot.compareFits Man page
plot.gls Man page
plot.intervals.lmList Man page
plot.lme Man page
plot.lmList Man page
plot.nffGroupedData Man page
plot.nfnGroupedData Man page
plot.nls Man page
plot.nmGroupedData Man page
plot.pdMat Man page
plot.ranef.lme Man page
plot.ranef.lmList Man page
plot.simulate.lme Man page
plot.Variogram Man page
pooledSD Man page
predict.gls Man page
predict.gnls Man page
predict.lme Man page
predict.lmList Man page
predict.nlme Man page
print.anova.lme Man page
print.compareFits Man page
print.corNatural Man page
print.intervals.gls Man page
print.intervals.lme Man page
print.intervals.lmList Man page
print.lmList Man page
print.ranef Man page
print.ranef.lme Man page
print.reStruct Man page
print.simulate.lme Man page
print.summary.lme Man page
print.summary.pdMat Man page
print.varComb Man page
print.VarCorr.lme Man page
print.VarCov Man page
print.varFunc Man page
qqnorm.gls Man page
qqnorm.lm Man page
qqnorm.lme Man page
qqnorm.lmList Man page
qqnorm.nls Man page
Quinidine Man page
quinModel Man page
Rail Man page
random.effects Man page
random.effects.lme Man page
random.effects.lmList Man page
ranef Man page
ranef.lme Man page
ranef.lmList Man page
RatPupWeight Man page
recalc Man page
recalc.corAR1 Man page
recalc.corARMA Man page
recalc.corCAR1 Man page
recalc.corCompSymm Man page
recalc.corHF Man page
recalc.corIdent Man page
recalc.corNatural Man page
recalc.corSpatial Man page
recalc.corStruct Man page
recalc.corSymm Man page
recalc.modelStruct Man page
recalc.reStruct Man page
recalc.varFunc Man page
recalc.varIdent Man page
Relaxin Man page
Remifentanil Man page
residuals.gls Man page
residuals.glsStruct Man page
residuals.gnls Man page
residuals.gnlsStruct Man page
residuals.lme Man page
residuals.lmeStruct Man page
residuals.lmList Man page
residuals.nlmeStruct Man page
reStruct Man page
[.reStruct Man page
sigma Man page
sigma.lme Man page
simulate.lme Man page
solve.pdBlocked Man page
solve.pdDiag Man page
solve.pdIdent Man page
solve.pdLogChol Man page
solve.pdMat Man page
solve.pdNatural Man page
solve.pdSymm Man page
solve.reStruct Man page
Soybean Man page
splitFormula Man page
Spruce Man page
summary.corAR1 Man page
summary.corARMA Man page
summary.corCAR1 Man page
summary.corCompSymm Man page
summary.corExp Man page
summary.corGaus Man page
summary.corIdent Man page
summary.corLin Man page
summary.corNatural Man page
summary.corRatio Man page
summary.corSpher Man page
summary.corStruct Man page
summary.corSymm Man page
summary.gls Man page
summary.lme Man page
summary.lmList Man page
summary.modelStruct Man page
summary.nlsList Man page
summary.pdBlocked Man page
summary.pdCompSymm Man page
summary.pdDiag Man page
summary.pdIdent Man page
summary.pdLogChol Man page
summary.pdMat Man page
summary.pdNatural Man page
summary.pdSymm Man page
summary.reStruct Man page
summary.varComb Man page
summary.varConstPower Man page
summary.varExp Man page
summary.varFixed Man page
summary.varFunc Man page
summary.varIdent Man page
summary.varPower Man page
Tetracycline1 Man page
Tetracycline2 Man page
update.corStruct Man page
update.gls Man page
update.gnls Man page
update.groupedData Man page
update.lme Man page
update.lmList Man page
update.modelStruct Man page
update.nlsList Man page
update.reStruct Man page
update.varComb Man page
update.varConstPower Man page
update.varExp Man page
update.varExpon Man page
update.varFunc Man page
update.varPower Man page
varClasses Man page
varComb Man page
varConstPower Man page
VarCorr Man page
VarCorr.lme Man page
VarCorr.pdBlocked Man page
VarCorr.pdMat Man page
varExp Man page
varFixed Man page
varFunc Man page
varIdent Man page
Variogram Man page
Variogram.corExp Man page
Variogram.corGaus Man page
Variogram.corLin Man page
Variogram.corRatio Man page
Variogram.corSpatial Man page
Variogram.corSpher Man page
Variogram.default Man page
Variogram.gls Man page
Variogram.lme Man page
varPower Man page
varWeights Man page
varWeights.glsStruct Man page
varWeights.lmeStruct Man page
varWeights.varComb Man page
varWeights.varFunc Man page
Wafer Man page
Wheat Man page
Wheat2 Man page


inst/scripts/ch01.R inst/scripts/ch02.R inst/scripts/ch06.R inst/scripts/runme.R inst/scripts/ch05.R inst/scripts/ch08.R inst/scripts/ch04.R inst/scripts/ch03.R
inst/mlbook/ch05.R inst/mlbook/ch04.R
tests/anova.gls.R tests/nlme.R tests/nlme2.R
tests/data.frame.R tests/missing.R tests/contrMat.R tests/fitted.R tests/predict.lme.R tests/augPredmissing.R tests/coef.R tests/deparse.R tests/augPred_lab.R tests/varIdent.R
tests/updateLme.R tests/deviance.R
tests/sigma-fixed-etc.R tests/getData.R tests/lmList.R tests/gls.R tests/lme.R
R/groupedData.R R/gnls.R R/zzMethods.R R/nlme.R R/newMethods.R R/corStruct.R R/newGenerics.R R/nlsList.R R/reStruct.R R/modelStruct.R R/VarCov.R R/varFunc.R R/pdMat.R R/simulate.R R/newFunc.R R/VarCorr.R R/lmList.R R/gls.R R/lme.R
man/getGroups.gls.Rd man/plot.gls.Rd man/summary.pdMat.Rd man/getGroupsFormula.Rd man/pdIdent.Rd man/summary.gls.Rd man/corMatrix.reStruct.Rd man/Coef.Rd man/Tetracycline1.Rd man/getData.lmList.Rd man/Dim.corStruct.Rd man/varExp.Rd man/gnls.Rd man/VarCorr.Rd man/pdMat.Rd man/getData.lme.Rd man/pdConstruct.Rd man/as.matrix.pdMat.Rd man/Names.Rd man/ACF.gls.Rd man/coef.reStruct.Rd man/coef.pdMat.Rd man/collapse.groupedData.Rd man/residuals.lmList.Rd man/recalc.varFunc.Rd man/Initialize.Rd man/pdMatrix.Rd man/corSpher.Rd man/Glucose2.Rd man/Dim.corSpatial.Rd man/Variogram.corRatio.Rd man/plot.ranef.lmList.Rd man/getCovariate.corStruct.Rd man/LDEsysMat.Rd man/update.modelStruct.Rd man/coef.varFunc.Rd man/pdDiag.Rd man/corCAR1.Rd man/logDet.corStruct.Rd man/summary.lme.Rd man/logLik.reStruct.Rd man/plot.nffGroupedData.Rd man/lmList.Rd man/Meat.Rd man/pdCompSymm.Rd man/Variogram.corSpatial.Rd man/ergoStool.Rd man/Relaxin.Rd man/recalc.modelStruct.Rd man/summary.modelStruct.Rd man/asOneFormula.Rd man/coef.lmList.Rd man/compareFits.Rd man/Matrix.reStruct.Rd man/plot.compareFits.Rd man/Variogram.corExp.Rd man/varComb.Rd man/lmList.groupedData.Rd man/corMatrix.pdMat.Rd man/pdSymm.Rd man/lme.lmList.Rd man/predict.lme.Rd man/gls-internal.Rd man/varConstPower.Rd man/residuals.glsStruct.Rd man/qqnorm.lme.Rd man/formula.reStruct.Rd man/residuals.gls.Rd man/lmeControl.Rd man/BodyWeight.Rd man/coef.gnls.Rd man/Machines.Rd man/Names.reStruct.Rd man/plot.Variogram.Rd man/Dialyzer.Rd man/fitted.lmeStruct.Rd man/gnlsStruct.Rd man/getGroups.Rd man/Initialize.glsStruct.Rd man/Matrix.pdMat.Rd man/varWeights.glsStruct.Rd man/nlmeStruct.Rd man/plot.lme.Rd man/Glucose.Rd man/Names.pdBlocked.Rd man/logLik.lmeStruct.Rd man/summary.corStruct.Rd man/corRatio.Rd man/predict.gnls.Rd man/glsStruct.Rd man/varIdent.Rd man/qqnorm.gls.Rd man/Wheat2.Rd man/fdHess.Rd man/recalc.reStruct.Rd man/glsControl.Rd man/Tetracycline2.Rd man/Names.formula.Rd man/phenoModel.Rd man/corCompSymm.Rd man/Nitrendipene.Rd man/logLik.varFunc.Rd man/MathAchieve.Rd man/asTable.Rd man/nlsList.selfStart.Rd man/Variogram.corGaus.Rd man/summary.nlsList.Rd man/Variogram.corSpher.Rd man/formula.pdBlocked.Rd man/lme.groupedData.Rd man/Fatigue.Rd man/Spruce.Rd man/coef.lme.Rd man/varWeights.Rd man/pdNatural.Rd man/lmeStruct.Rd man/nlmeObject.Rd man/as.matrix.corStruct.Rd man/predict.nlme.Rd man/Alfalfa.Rd man/pdConstruct.pdBlocked.Rd man/Phenobarb.Rd man/groupedData.Rd man/print.varFunc.Rd man/corMatrix.corStruct.Rd man/corExp.Rd man/predict.gls.Rd man/pooledSD.Rd man/residuals.nlmeStruct.Rd man/Oats.Rd man/corClasses.Rd man/Wheat.Rd man/Covariate.varFunc.Rd man/ man/getCovariate.Rd man/pdBlocked.Rd man/coef.modelStruct.Rd man/varClasses.Rd man/corAR1.Rd man/Pixel.Rd man/anova.gls.Rd man/augPred.Rd man/residuals.lme.Rd man/Muscle.Rd man/pairs.lme.Rd man/nlsList.Rd man/PBG.Rd man/nlme.nlsList.Rd man/varFunc.Rd man/Variogram.corLin.Rd man/corARMA.Rd man/simulate.lme.Rd man/getCovariate.varFunc.Rd man/MathAchSchool.Rd man/Variogram.default.Rd man/plot.ranef.lme.Rd man/plot.lmList.Rd man/intervals.gls.Rd man/getData.gls.Rd man/Variogram.gls.Rd man/Matrix.Rd man/getVarCov.Rd man/print.summary.pdMat.Rd man/corSpatial.Rd man/corNatural.Rd man/quinModel.Rd man/logLik.gnlsStruct.Rd man/intervals.lmList.Rd man/logLik.glsStruct.Rd man/corFactor.Rd man/Covariate.Rd man/gapply.Rd man/ACF.lme.Rd man/gnlsObject.Rd man/fitted.lme.Rd man/logLik.gnls.Rd man/IGF.Rd man/lmeObject.Rd man/fitted.glsStruct.Rd man/lme.Rd man/logDet.reStruct.Rd man/plot.nmGroupedData.Rd man/Milk.Rd man/Initialize.corStruct.Rd man/Cefamandole.Rd man/getResponse.Rd man/getGroups.lme.Rd man/getGroups.varFunc.Rd man/logLik.corStruct.Rd man/solve.reStruct.Rd man/needUpdate.Rd man/Initialize.reStruct.Rd man/fitted.lmList.Rd man/Remifentanil.Rd man/summary.varFunc.Rd man/corLin.Rd man/fixed.effects.Rd man/Dim.Rd man/formula.pdMat.Rd man/pairs.compareFits.Rd man/Oxboys.Rd man/recalc.Rd man/logDet.Rd man/isInitialized.Rd man/solve.pdMat.Rd man/getResponseFormula.Rd man/Oxide.Rd man/pdClasses.Rd man/gsummary.Rd man/pairs.lmList.Rd man/Extract.pdMat.Rd man/intervals.Rd man/corGaus.Rd man/Rail.Rd man/Initialize.varFunc.Rd man/corFactor.corStruct.Rd man/Initialize.lmeStruct.Rd man/Soybean.Rd man/pdLogChol.Rd man/isBalanced.Rd man/update.varFunc.Rd man/reStruct.Rd man/logLik.lme.Rd man/gls.Rd man/comparePred.Rd man/allCoef.Rd man/RatPupWeight.Rd man/residuals.lmeStruct.Rd man/collapse.Rd man/logLik.lmList.Rd man/Gun.Rd man/recalc.corStruct.Rd man/logDet.pdMat.Rd man/pdMatrix.reStruct.Rd man/Ovary.Rd man/pdFactor.Rd man/ACF.Rd man/predict.lmList.Rd man/coef.corStruct.Rd man/varPower.Rd man/ranef.lme.Rd man/Gasoline.Rd man/plot.nfnGroupedData.Rd man/Variogram.lme.Rd man/Variogram.Rd man/summary.lmList.Rd man/anova.lme.Rd man/residuals.gnlsStruct.Rd man/fitted.gnlsStruct.Rd man/plot.augPred.Rd man/getCovariateFormula.Rd man/Earthquake.Rd man/pdFactor.reStruct.Rd man/plot.intervals.lmList.Rd man/bdf.Rd man/fixef.lmList.Rd man/corMatrix.Rd man/model.matrix.reStruct.Rd man/corSymm.Rd man/glsObject.Rd man/getData.Rd man/Dim.pdMat.Rd man/plot.ACF.Rd man/ranef.lmList.Rd man/nlme.Rd man/varFixed.Rd man/Quinidine.Rd man/fitted.nlmeStruct.Rd man/ man/getGroups.corStruct.Rd man/Wafer.Rd man/getGroups.lmList.Rd man/splitFormula.Rd man/Names.pdMat.Rd man/gnlsControl.Rd man/varWeights.lmeStruct.Rd man/intervals.lme.Rd man/random.effects.Rd man/Assay.Rd man/as.matrix.reStruct.Rd man/Orthodont.Rd man/balancedGrouped.Rd man/needUpdate.modelStruct.Rd man/nlmeControl.Rd

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