RDocumentation
Moon
Learn R
Search all packages and functions
⚠️
There's a newer version (3.1-164) of this package.
Take me there.
nlme (version 3.1-91)
Linear and Nonlinear Mixed Effects Models
Description
Fit and compare Gaussian linear and nonlinear mixed-effects models.
Copy Link
Copy
Link to current version
Version
Version
3.1-164
3.1-163
3.1-162
3.1-161
3.1-160
3.1-159
3.1-158
3.1-157
3.1-155
3.1-153
3.1-152
3.1-151
3.1-150
3.1-149
3.1-148
3.1-147
3.1-145
3.1-144
3.1-143
3.1-142
3.1-141
3.1-140
3.1-139
3.1-138
3.1-137
3.1-131.1
3.1-131
3.1-130
3.1-129
3.1-128
3.1-127
3.1-126
3.1-125
3.1-124
3.1-123
3.1-122
3.1-121
3.1-120
3.1-119
3.1-118
3.1-117
3.1-116
3.1-115
3.1-114
3.1-113
3.1-112
3.1-111
3.1-110
3.1-109
3.1-108
3.1-107
3.1-106
3.1-105
3.1-104
3.1-103
3.1-102
3.1-101
3.1-100
3.1-99
3.1-98
3.1-97
3.1-96
3.1-95
3.1-94
3.1-93
3.1-92
3.1-91
3.1-90
3.1-89
3.1-88
3.1-87
3.1-86
3.1-85
3.1-84
3.1-83
3.1-82
3.1-81
3.1-80
3.1-79
3.1-78
3.1-77
3.1-76
3.1-75
3.1-74
3.1-73
3.1-72
3.1-71
3.1-70
3.1-69
3.1-68.1
3.1-66
3.1-65
3.1-64
3.1-63
3.1-62
3.1-61
3.1-60
3.1-58
3.1-57
3.1-56
3.1-55
3.1-53
3.1-52
3.1-51
3.1-50
3.1-48
3.1-45
3.1-44
3.1-43
3.1-42
3.1-41
3.1-40
3.1-39
3.1-38
3.1-37
3.1-36
3.1-35
3.1-34
3.1-33
3.1-32
3.1-31
3.1-30
3.1-29
3.1-28
3.1-27
3.1-24
3.1-23
3.1-22
3.1-21
3.1-19
3.1-18
3.1-17
3.1-16
3.1-13
3.1-10
3.1-8
3.1-7
3.1-6
3.1-5
3.1-4
3.1-3
3.1-2 (1999/12/23)
3.1-1
Down Chevron
Install
install.packages('nlme')
Monthly Downloads
83,497
Version
3.1-91
License
GPL (>= 2)
Maintainer
R-core R-core@R-project.org
Last Published
May 4th, 2009
Functions in nlme (3.1-91)
Search functions
Gun
Methods for firing naval guns
Dim.pdMat
Dimensions of a pdMat Object
Initialize.lmeStruct
Initialize an lmeStruct Object
Initialize.glsStruct
Initialize a glsStruct Object
Spruce
Growth of Spruce Trees
Names.pdBlocked
Names of a pdBlocked Object
Matrix
Assign Matrix Values
Assay
Bioassay on Cell Culture Plate
Pixel
X-ray pixel intensities over time
lmeScale
Scale for lme Optimization
Glucose
Glucose levels over time
Variogram.corRatio
Calculate Semi-variogram for a corRatio Object
Soybean
Growth of soybean plants
Coef
Assign Values to Coefficients
getGroups.data.frame
Extract Groups from a Data Frame
Tetracycline2
Pharmacokinetics of tetracycline
Variogram.lme
Calculate Semi-variogram for Residuals from an lme Object
Variogram.default
Calculate Semi-variogram
Dim.corStruct
Dimensions of a corStruct Object
comparePred
Compare Predictions
Oxboys
Heights of Boys in Oxford
Fatigue
Cracks caused by metal fatigue
gsummary
Summarize by Groups
collapse
Collapse According to Groups
corMatrix.corStruct
Matrix of a corStruct Object
corFactor
Factor of a Correlation Matrix
intervals.gls
Confidence Intervals on gls Parameters
corNatural
General correlation in natural parameterization
Cefamandole
Pharmacokinetics of Cefamandole
corSymm
General Correlation Structure
as.matrix.corStruct
Matrix of a corStruct Object
corARMA
ARMA(p,q) Correlation Structure
getGroups.lmList
Extract lmList Object Groups
logLik.gnls
Log-Likelihood of a gnls Object
Dialyzer
High-Flux Hemodialyzer
Glucose2
Glucose Levels Following Alcohol Ingestion
getCovariate.data.frame
Extract Data Frame Covariate
getCovariate.varFunc
Extract varFunc Covariate
pdClasses
Positive-Definite Matrix Classes
Wheat
Yields by growing conditions
Matrix.pdMat
Assign Matrix to a pdMat Object
fdHess
Finite difference Hessian
Muscle
Contraction of heart muscle sections
formula.pdMat
Extract pdMat Formula
lme.lmList
LME fit from lmList Object
ergoStool
Ergometrics experiment with stool types
getCovariate.corStruct
Extract corStruct Object Covariate
getData.lmList
Extract lmList Object Data
fitted.gnlsStruct
Calculate gnlsStruct Fitted Values
pdFactor.reStruct
Extract Square-Root Factor from Components of an reStruct Object
Dim
Extract Dimensions from an Object
plot.gls
Plot a gls Object
Initialize
Initialize Object
getResponse
Extract Response Variable from an Object
Gasoline
Refinery yield of gasoline
Names
Names Associated with an Object
LDEsysMat
Generate system matrix for LDEs
Variogram.corSpher
Calculate Semi-variogram for a corSpher Object
coef.pdMat
pdMat Object Coefficients
residuals.glsStruct
Calculate glsStruct Residuals
Oxide
Variability in Semiconductor Manufacturing
predict.gnls
Predictions from a gnls Object
logLik.lme
Log-Likelihood of an lme Object
plot.lme
Plot an lme or nls object
lme.groupedData
LME fit from groupedData Object
compareFits
Compare Fitted Objects
nlmeStruct
Nonlinear Mixed-Effects Structure
Names.formula
Extract Names from a formula
Ovary
Counts of Ovarian Follicles
recalc.reStruct
Recalculate for an reStruct Object
plot.lmList
Plot an lmList Object
logLik.corStruct
Extract corStruct Log-Likelihood
corFactor.corStruct
Factor of a corStruct Object Matrix
Covariate
Assign Covariate Values
Rail
Evaluation of Stress in Railway Rails
reStruct
Random Effects Structure
Phenobarb
Phenobarbitol Kinetics
corRatio
Rational Quadratic Correlation Structure
fitted.lmList
Extract lmList Fitted Values
nlmeControl
Control Values for nlme Fit
getVarCov
Extract variance-covariance matrix
print.summary.pdMat
Print a summary.pdMat Object
anova.gls
Compare Likelihoods of Fitted Objects
groupedData
Construct a groupedData Object
intervals
Confidence Intervals on Coefficients
pooledSD
Extract Pooled Standard Deviation
formula.reStruct
Extract reStruct Object Formula
fixed.effects
Extract Fixed Effects
lmeControl
Control Values for lme Fit
BIC.logLik
BIC of a logLik Object
getData.gls
Extract gls Object Data
isBalanced
Check a Design for Balance
varFunc
Variance Function Structure
Variogram.corExp
Calculate Semi-variogram for a corExp Object
coef.lmList
Extract lmList Coefficients
varClasses
Variance Function Classes
phenoModel
Model function for the Phenobarb data
plot.Variogram
Plot a Variogram Object
recalc
Recalculate Condensed Linear Model Object
pdIdent
Multiple of the Identity Positive-Definite Matrix
update.modelStruct
Update a modelStruct Object
summary.lme
Summarize an lme Object
needUpdate.modelStruct
Check if a modelStruct Object Needs Updating
varWeights.lmeStruct
Variance Weights for lmeStruct Object
recalc.modelStruct
Recalculate for a modelStruct Object
Oats
Split-plot Experiment on Varieties of Oats
varPower
Power Variance Function
fitted.lme
Extract lme Fitted Values
Nitrendipene
Assay of nitrendipene
Alfalfa
Split-Plot Experiment on Varieties of Alfalfa
Tetracycline1
Pharmacokinetics of tetracycline
varExp
Exponential Variance Function
Variogram.corLin
Calculate Semi-variogram for a corLin Object
corSpatial
Spatial Correlation Structure
coef.lme
Extract lme Coefficients
as.matrix.pdMat
Matrix of a pdMat Object
corExp
Exponential Correlation Structure
summary.pdMat
Summarize a pdMat Object
getGroups
Extract Grouping Factors from an Object
coef.modelStruct
Extract modelStruct Object Coefficients
gnls
Fit Nonlinear Model Using Generalized Least Squares
glsObject
Fitted gls Object
pdFactor
Square-Root Factor of a Positive-Definite Matrix
getGroups.varFunc
Extract varFunc Groups
getGroupsFormula
Extract Grouping Formula
coef.corStruct
Coefficients of a corStruct Object
gapply
Apply a Function by Groups
print.varFunc
Print a varFunc Object
lme
Linear Mixed-Effects Models
logLik.varFunc
Extract varFunc logLik
getGroups.gls
Extract gls Object Groups
nlme.nlsList
NLME fit from nlsList Object
qqnorm.gls
Normal Plot of Residuals from a gls Object
needUpdate
Check if Update is Needed
corCompSymm
Compound Symmetry Correlation Structure
summary.modelStruct
Summarize a modelStruct Object
asTable
Convert groupedData to a matrix
residuals.gls
Extract gls Residuals
nlmeObject
Fitted nlme Object
corAR1
AR(1) Correlation Structure
corMatrix
Extract Correlation Matrix
corClasses
Correlation Structure Classes
recalc.corStruct
Recalculate for corStruct Object
summary.lmList
Summarize an lmList Object
logLik.glsStruct
Log-Likelihood of a glsStruct Object
IGF
Radioimmunoassay of IGF-I Protein
fixef.lmList
Extract lmList Fixed Effects
logLik.lmeStruct
Log-Likelihood of an lmeStruct Object
simulate.lme
Simulate results from lme models
logDet.corStruct
Extract corStruct Log-Determinant
ranef.lme
Extract lme Random Effects
gnlsObject
Fitted gnls Object
varComb
Combination of Variance Functions
VarCorr
Extract variance and correlation components
pdConstruct.pdBlocked
Construct pdBlocked Objects
RatPupWeight
The weight of rat pups
random.effects
Extract Random Effects
pdMatrix.reStruct
Extract Matrix or Square-Root Factor from Components of an reStruct Object
Orthodont
Growth curve data on an orthdontic measurement
gnlsStruct
Generalized Nonlinear Least Squares Structure
varWeights.glsStruct
Variance Weights for glsStruct Object
PBG
Effect of Phenylbiguanide on Blood Pressure
varIdent
Constant Variance Function
solve.reStruct
Apply Solve to an reStruct Object
Variogram.gls
Calculate Semi-variogram for Residuals from a gls Object
plot.nfnGroupedData
Plot an nfnGroupedData Object
nlme
Nonlinear Mixed-Effects Models
isInitialized
Check if Object is Initialized
augPred
Augmented Predictions
pdMat
Positive-Definite Matrix
pdSymm
General Positive-Definite Matrix
predict.lme
Predictions from an lme Object
glsControl
Control Values for gls Fit
gnlsControl
Control Values for gnls Fit
residuals.gnlsStruct
Calculate gnlsStruct Residuals
Dim.corSpatial
Dimensions of a corSpatial Object
MathAchSchool
School demographic data for MathAchieve
logDet
Extract the Logarithm of the Determinant
Remifentanil
Pharmacokinetics of remifentanil
logDet.pdMat
Extract Log-Determinant from a pdMat Object
residuals.lme
Extract lme Residuals
Variogram
Calculate Semi-variogram
lmList
List of lm Objects with a Common Model
asOneFormula
Combine Formulas of a Set of Objects
pdCompSymm
Positive-Definite Matrix with Compound Symmetry Structure
residuals.nlmeStruct
Calculate nlmeStruct Residuals
nlsList
List of nls Objects with a Common Model
pdDiag
Diagonal Positive-Definite Matrix
plot.augPred
Plot an augPred Object
plot.ranef.lme
Plot a ranef.lme Object
pairs.compareFits
Pairs Plot of compareFits Object
getCovariateFormula
Extract Covariates Formula
predict.nlme
Predictions from an nlme Object
pdLogChol
General Positive-Definite Matrix
pdConstruct
Construct pdMat Objects
plot.compareFits
Plot a compareFits Object
update.varFunc
Update varFunc Object
plot.nffGroupedData
Plot an nffGroupedData Object
summary.gls
Summarize a gls Object
predict.lmList
Predictions from an lmList Object
BodyWeight
Rat weight over time for different diets
Initialize.corStruct
Initialize corStruct Object
Names.pdMat
Names of a pdMat Object
Quinidine
Quinidine Kinetics
corCAR1
Continuous AR(1) Correlation Structure
corMatrix.pdMat
Extract Correlation Matrix from a pdMat Object
fitted.glsStruct
Calculate glsStruct Fitted Values
gls
Fit Linear Model Using Generalized Least Squares
ranef.lmList
Extract lmList Random Effects
qqnorm.lme
Normal Plot of Residuals or Random Effects from an lme Object
summary.corStruct
Summarize a corStruct Object
ACF.gls
Autocorrelation Function for gls Residuals
Covariate.varFunc
Assign varFunc Covariate
Meat
Tenderness of meat
coef.gnls
Extract gnls Coefficients
formula.pdBlocked
Extract pdBlocked Formula
getData
Extract Data from an Object
intervals.lme
Confidence Intervals on lme Parameters
pairs.lmList
Pairs Plot of an lmList Object
ACF.lme
Autocorrelation Function for lme Residuals
plot.ranef.lmList
Plot a ranef.lmList Object
residuals.lmeStruct
Calculate lmeStruct Residuals
BIC
Bayesian Information Criterion
allCoef
Extract Coefficients from a Set of Objects
Matrix.reStruct
Assign reStruct Matrices
bdf
Language scores
varWeights
Extract Variance Function Weights
coef.reStruct
reStruct Object Coefficients
intervals.lmList
Confidence Intervals on lmList Coefficients
quinModel
Model function for the Quinidine data
collapse.groupedData
Collapse a groupedData Object
Earthquake
Earthquake Intensity
getGroups.corStruct
Extract corStruct Groups
plot.ACF
Plot an ACF Object
lmeObject
Fitted lme Object
Milk
Protein content of cows' milk
MathAchieve
Mathematics achievement scores
Names.reStruct
Names of an reStruct Object
Wafer
Modeling of Analog MOS Circuits
Wheat2
Wheat Yield Trials
balancedGrouped
Create a groupedData object from a matrix
corLin
Linear Correlation Structure
getCovariate
Extract Covariate from an Object
fitted.lmeStruct
Calculate lmeStruct Fitted Values
lmList.groupedData
lmList Fit from a groupedData Object
logLik.reStruct
Calculate reStruct Log-Likelihood
predict.gls
Predictions from a gls Object
pdNatural
General Positive-Definite Matrix in Natural Parametrization
pdMatrix
Extract Matrix or Square-Root Factor from a pdMat Object
solve.pdMat
Calculate Inverse of a Positive-Definite Matrix
ACF
Autocorrelation Function
Initialize.reStruct
Initialize reStruct Object
Initialize.varFunc
Initialize varFunc Object
Machines
Productivity Scores for Machines and Workers
Variogram.corGaus
Calculate Semi-variogram for a corGaus Object
corSpher
Spherical Correlation Structure
getData.lme
Extract lme Object Data
plot.intervals.lmList
Plot lmList Confidence Intervals
plot.nmGroupedData
Plot an nmGroupedData Object
summary.nlsList
Summarize an nlsList Object
residuals.lmList
Extract lmList Residuals
splitFormula
Split a Formula
[.pdMat
Subscript a pdMat Object
as.matrix.reStruct
Matrices of an reStruct Object
glsStruct
Generalized Least Squares Structure
getResponseFormula
Extract Formula Specifying Response Variable
lmeStruct
Linear Mixed-Effects Structure
nlsList.selfStart
nlsList Fit from a selfStart Function
model.matrix.reStruct
reStruct Model Matrix
logLik.gnlsStruct
Log-Likelihood of a gnlsStruct Object
pdBlocked
Positive-Definite Block Diagonal Matrix
recalc.varFunc
Recalculate for varFunc Object
varConstPower
Constant Plus Power Variance Function
pairs.lme
Pairs Plot of an lme Object
corMatrix.reStruct
Extract Correlation Matrix from Components of an reStruct Object
summary.varFunc
Summarize varFunc Object
logLik.lmList
Log-Likelihood of an lmList Object
Relaxin
Assay for Relaxin
coef.varFunc
varFunc Object Coefficients
anova.lme
Compare Likelihoods of Fitted Objects
getGroups.lme
Extract lme Object Groups
varFixed
Fixed Variance Function
fitted.nlmeStruct
Calculate nlmeStruct Fitted Values
logDet.reStruct
Extract reStruct Log-Determinants
corGaus
Gaussian Correlation Structure
Variogram.corSpatial
Calculate Semi-variogram for a corSpatial Object