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car::Anova Anova Tables for Various Statistical Models
car::Contrasts Functions to Construct Contrasts
car::Predict Model Predictions
car::S Modified Functions for Summarizing Linear, Generalized Linear, and Some Other Models
car::deltaMethod Estimate and Standard Error of a Nonlinear Function of Estimated Regression Coefficients
car::influence.mixed.models Influence Diagnostics for Mixed-Effects Models
car::linearHypothesis Test Linear Hypothesis
car::poTest Test for Proportional Odds in the Proportional-Odds Logistic-Regression Model
e1071::plot.tune Plot Tuning Object
e1071::tune Parameter Tuning of Functions Using Grid Search
e1071::tune.control Control Parameters for the Tune Function
e1071::tune.wrapper Convenience Tuning Wrapper Functions
estimability::epredict Estimability Enhancements for 'lm' and Relatives
estimability::estble.subspace Find an estimable subspace
estimability::estimability-package Estimability Tools for Linear Models
estimability::nonest.basis Estimability Tools
lme4::VarCorr Extract Variance and Correlation Components
lme4::allFit Refit a fitted model with all available optimizers
lme4::bootMer Model-based (Semi-)Parametric Bootstrap for Mixed Models
lme4::expandDoubleVerts Expand terms with "||" notation into separate "|" terms
lme4::factorize Attempt to convert grouping variables to factors
lme4::findbars Determine random-effects expressions from a formula
lme4::fixed.effects Extract fixed-effects estimates
lme4::glmer Fitting Generalized Linear Mixed-Effects Models
lme4::glmer.nb Fitting Negative Binomial GLMMs
lme4::influence.merMod Influence Diagnostics for Mixed-Effects Models
lme4::lmList Fit List of lm or glm Objects with a Common Model
lme4::lmer Fit Linear Mixed-Effects Models
lme4::glFormula Modular Functions for Mixed Model Fits
lme4::nlmer Fitting Nonlinear Mixed-Effects Models
lme4::nobars Omit terms separated by vertical bars in a formula
lme4::ranef Extract the modes of the random effects
lme4::subbars "Sub[stitute] Bars"
MatrixModels::glm4 Fitting Generalized Linear Models (using S4)
MatrixModels::mkRespMod Create a respModule object
MatrixModels::model.Matrix Construct Possibly Sparse Design or Model Matrices
MatrixModels::resid,ANY-method Aliases for Model Extractors
multcomp::mmm Simultaneous Inference for Multiple Marginal Models
pbkrtest::get_ddf_Lb Adjusted denomintor degress freedom for linear estimate for linear mixed model.
pbkrtest::kr-modcomp F-test and degrees of freedom based on Kenward-Roger approximation
pbkrtest::kr-vcov Ajusted covariance matrix for linear mixed models according to Kenward and Roger
pbkrtest::pb-modcomp Model comparison using parametric bootstrap methods.
pbkrtest::pb-refdist Calculate reference distribution using parametric bootstrap
pbkrtest::sat-modcomp F-test and degrees of freedom based on Satterthwaite approximation
quantreg::nlrq Function to compute nonlinear quantile regression estimates
quantreg::residuals.nlrq Return residuals of an nlrq object
s20x::crossFactors Crossed Factors
s20x::estimateContrasts Contrast Estimates
s20x::rr Read Data
s20x::summary1way One-way Analysis of Variance Summary
s20x::summary2way Two-way Analysis of Variance Summary
sp::select.spatial select points spatially
survey::SE Extract standard errors
survey::svymle Maximum pseudolikelihood estimation in complex surveys
base::I Inhibit Interpretation/Conversion of Objects
base::expand.grid Create a Data Frame from All Combinations of Factor Variables
base::labels Find Labels from Object
base::~ Tilde Operator
MASS::addterm Try All One-Term Additions to a Model
MASS::boxcox Box-Cox Transformations for Linear Models
MASS::confint.glm Confidence Intervals for Model Parameters
MASS::contr.sdif Successive Differences Contrast Coding
MASS::denumerate Transform an Allowable Formula for 'loglm' into one for 'terms'
MASS::dose.p Predict Doses for Binomial Assay model
MASS::dropterm Try All One-Term Deletions from a Model
MASS::gamma.dispersion Calculate the MLE of the Gamma Dispersion Parameter in a GLM Fit
MASS::gamma.shape Estimate the Shape Parameter of the Gamma Distribution in a GLM Fit
MASS::glm.convert Change a Negative Binomial fit to a GLM fit
MASS::glm.nb Fit a Negative Binomial Generalized Linear Model
MASS::glmmPQL Fit Generalized Linear Mixed Models via PQL
MASS::lm.gls Fit Linear Models by Generalized Least Squares
MASS::lm.ridge Ridge Regression
MASS::loglm Fit Log-Linear Models by Iterative Proportional Scaling
MASS::logtrans Estimate log Transformation Parameter
MASS::lqs Resistant Regression
MASS::negative.binomial Family function for Negative Binomial GLMs
MASS::plot.profile Plotting Functions for 'profile' Objects
MASS::polr Ordered Logistic or Probit Regression
MASS::predict.glmmPQL Predict Method for glmmPQL Fits
MASS::predict.lqs Predict from an lqs Fit
MASS::profile.glm Method for Profiling glm Objects
MASS::renumerate Convert a Formula Transformed by 'denumerate'
MASS::rlm Robust Fitting of Linear Models
MASS::stdres Extract Standardized Residuals from a Linear Model
MASS::stepAIC Choose a model by AIC in a Stepwise Algorithm
MASS::studres Extract Studentized Residuals from a Linear Model
MASS::summary.loglm Summary Method Function for Objects of Class 'loglm'
MASS::summary.negbin Summary Method Function for Objects of Class 'negbin'
MASS::theta.md Estimate theta of the Negative Binomial
Matrix::sparse.model.matrix Construct Sparse Design / Model Matrices
mgcv::betar GAM beta regression family
mgcv::FFdes Level 5 fractional factorial designs
mgcv::Predict.matrix Prediction methods for smooth terms in a GAM
mgcv::Predict.matrix.cr.smooth Predict matrix method functions
mgcv::Predict.matrix.soap.film Prediction matrix for soap film smooth
mgcv::Rrank Find rank of upper triangular matrix
mgcv::Tweedie GAM Tweedie families
mgcv::XWXd Internal functions for discretized model matrix handling
mgcv::anova.gam Approximate hypothesis tests related to GAM fits
mgcv::bam Generalized additive models for very large datasets
mgcv::bam.update Update a strictly additive bam model for new data.
mgcv::bandchol Choleski decomposition of a band diagonal matrix
mgcv::blas.thread.test BLAS thread safety
mgcv::cSplineDes Evaluate cyclic B spline basis
mgcv::choldrop Deletion and rank one Cholesky factor update
mgcv::choose.k Basis dimension choice for smooths
mgcv::cnorm GAM censored normal family for log-normal AFT and Tobit models
mgcv::cox.ph Additive Cox Proportional Hazard Model
mgcv::cox.pht Additive Cox proportional hazard models with time varying covariates
mgcv::dpnorm Stable evaluation of difference between normal c.d.f.s
mgcv::extract.lme.cov Extract the data covariance matrix from an lme object
mgcv::factor.smooth.interaction Factor smooth interactions in GAMs
mgcv::family.mgcv Distribution families in mgcv
mgcv::fix.family.link Modify families for use in GAM fitting and checking
mgcv::fixDependence Detect linear dependencies of one matrix on another
mgcv::formXtViX Form component of GAMM covariance matrix
mgcv::formula.gam GAM formula
mgcv::fs.test FELSPLINE test function
mgcv::full.score GCV/UBRE score for use within nlm
mgcv::gam Generalized additive models with integrated smoothness estimation
mgcv::gam.check Some diagnostics for a fitted gam model
mgcv::gam.control Setting GAM fitting defaults
mgcv::gam.convergence GAM convergence and performance issues
mgcv::gam.fit GAM P-IRLS estimation with GCV/UBRE smoothness estimation
mgcv::gam.fit3 P-IRLS GAM estimation with GCV, UBRE/AIC or RE/ML derivative calculation
mgcv::gam.mh Simple posterior simulation with gam fits
mgcv::gam.models Specifying generalized additive models
mgcv::gam.outer Minimize GCV or UBRE score of a GAM using 'outer' iteration
mgcv::gam.scale Scale parameter estimation in GAMs
mgcv::gam.selection Generalized Additive Model Selection
mgcv::gam.side Identifiability side conditions for a GAM
mgcv::gam.vcomp Report gam smoothness estimates as variance components
mgcv::gam2objective Objective functions for GAM smoothing parameter estimation
mgcv::gamObject Fitted gam object
mgcv::gamSim Simulate example data for GAMs
mgcv::gamm Generalized Additive Mixed Models
mgcv::gammals Gamma location-scale model family
mgcv::gaulss Gaussian location-scale model family
mgcv::get.var Get named variable or evaluate expression from list or data.frame
mgcv::gevlss Generalized Extreme Value location-scale model family
mgcv::ginla GAM Integrated Nested Laplace Approximation Newton Enhanced
mgcv::gumbls Gumbel location-scale model family
mgcv::identifiability Identifiability constraints
mgcv::inSide Are points inside boundary?
mgcv::influence.gam Extract the diagonal of the influence/hat matrix for a GAM
mgcv::initial.sp Starting values for multiple smoothing parameter estimation
mgcv::interpret.gam Interpret a GAM formula
mgcv::jagam Just Another Gibbs Additive Modeller: JAGS support for mgcv.
mgcv::k.check Checking smooth basis dimension
mgcv::ldTweedie Log Tweedie density evaluation
mgcv::linear.functional.terms Linear functionals of a smooth in GAMs
mgcv::logLik.gam AIC and Log likelihood for a fitted GAM
mgcv::magic Stable Multiple Smoothing Parameter Estimation by GCV or UBRE
mgcv::magic.post.proc Auxilliary information from magic fit
mgcv::mgcv.FAQ Frequently Asked Questions for package mgcv
mgcv::mgcv.package Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation and GAMMs by REML/PQL
mgcv::mgcv.parallel Parallel computation in mgcv.
mgcv::model.matrix.gam Extract model matrix from GAM fit
mgcv::mono.con Monotonicity constraints for a cubic regression spline
mgcv::mroot Smallest square root of matrix
mgcv::multinom GAM multinomial logistic regression
mgcv::mvn Multivariate normal additive models
mgcv::negbin GAM negative binomial families
mgcv::new.name Obtain a name for a new variable that is not already in use
mgcv::notExp Functions for better-than-log positive parameterization
mgcv::notExp2 Alternative to log parameterization for variance components
mgcv::null.space.dimension The basis of the space of un-penalized functions for a TPRS
mgcv::ocat GAM ordered categorical family
mgcv::one.se.rule The one standard error rule for smoother models
mgcv::pcls Penalized Constrained Least Squares Fitting
mgcv::pdIdnot Overflow proof pdMat class for multiples of the identity matrix
mgcv::pdTens Functions implementing a pdMat class for tensor product smooths
mgcv::pen.edf Extract the effective degrees of freedom associated with each penalty in a gam fit
mgcv::place.knots Automatically place a set of knots evenly through covariate values
mgcv::plot.gam Default GAM plotting
mgcv::polys.plot Plot geographic regions defined as polygons
mgcv::predict.bam Prediction from fitted Big Additive Model model
mgcv::predict.gam Prediction from fitted GAM model
mgcv::print.gam Print a Generalized Additive Model object.
mgcv::psum.chisq Evaluate the c.d.f. of a weighted sum of chi-squared deviates
mgcv::qq.gam QQ plots for gam model residuals
mgcv::rTweedie Generate Tweedie random deviates
mgcv::residuals.gam Generalized Additive Model residuals
mgcv::rmvn Generate from or evaluate multivariate normal or t densities.
mgcv::s Defining smooths in GAM formulae
mgcv::scat GAM scaled t family for heavy tailed data
mgcv::sdiag Extract or modify diagonals of a matrix
mgcv::single.index Single index models with mgcv
mgcv::slanczos Compute truncated eigen decomposition of a symmetric matrix
mgcv::smooth.construct Constructor functions for smooth terms in a GAM
mgcv::smooth.construct.ad.smooth.spec Adaptive smooths in GAMs
mgcv::smooth.construct.bs.smooth.spec Penalized B-splines in GAMs
mgcv::smooth.construct.cr.smooth.spec Penalized Cubic regression splines in GAMs
mgcv::smooth.construct.ds.smooth.spec Low rank Duchon 1977 splines
mgcv::smooth.construct.fs.smooth.spec Factor smooth interactions in GAMs
mgcv::smooth.construct.gp.smooth.spec Low rank Gaussian process smooths
mgcv::smooth.construct.mrf.smooth.spec Markov Random Field Smooths
mgcv::smooth.construct.ps.smooth.spec P-splines in GAMs
mgcv::smooth.construct.re.smooth.spec Simple random effects in GAMs
mgcv::smooth.construct.so.smooth.spec Soap film smoother constructer
mgcv::smooth.construct.sos.smooth.spec Splines on the sphere
mgcv::smooth.construct.sz.smooth.spec Constrained factor smooth interactions in GAMs
mgcv::smooth.construct.t2.smooth.spec Tensor product smoothing constructor
mgcv::smooth.construct.tensor.smooth.spec Tensor product smoothing constructor
mgcv::smooth.construct.tp.smooth.spec Penalized thin plate regression splines in GAMs
mgcv::smooth.info Generic function to provide extra information about smooth specification
mgcv::smooth2random Convert a smooth to a form suitable for estimating as random effect
mgcv::smoothCon Prediction/Construction wrapper functions for GAM smooth terms
mgcv::sp.vcov Extract smoothing parameter estimator covariance matrix from (RE)ML GAM fit
mgcv::spasm.construct Experimental sparse smoothers
mgcv::step.gam Alternatives to step.gam
mgcv::summary.gam Summary for a GAM fit
mgcv::t2 Define alternative tensor product smooths in GAM formulae
mgcv::te Define tensor product smooths or tensor product interactions in GAM formulae
mgcv::tensor.prod.model.matrix Row Kronecker product/ tensor product smooth construction
mgcv::trichol Choleski decomposition of a tri-diagonal matrix
mgcv::twlss Tweedie location scale family
mgcv::uniquecombs find the unique rows in a matrix
mgcv::vcov.gam Extract parameter (estimator) covariance matrix from GAM fit
mgcv::vis.gam Visualization of GAM objects
mgcv::ziP GAM zero-inflated (hurdle) Poisson regression family
mgcv::ziplss Zero inflated (hurdle) Poisson location-scale model family
nlme::ACF Autocorrelation Function
nlme::ACF.gls Autocorrelation Function for gls Residuals
nlme::ACF.lme Autocorrelation Function for lme Residuals
nlme::coef<- Assign Values to Coefficients
nlme::covariate<- Assign Covariate Values
nlme::covariate<-.varFunc Assign varFunc Covariate
nlme::Dim Extract Dimensions from an Object
nlme::Dim.corSpatial Dimensions of a corSpatial Object
nlme::Dim.corStruct Dimensions of a corStruct Object
nlme::Dim.pdMat Dimensions of a pdMat Object
nlme::[.pdMat Subscript a pdMat Object
nlme::Initialize Initialize Object
nlme::Initialize.corStruct Initialize corStruct Object
nlme::Initialize.glsStruct Initialize a glsStruct Object
nlme::Initialize.lmeStruct Initialize an lmeStruct Object
nlme::Initialize.reStruct Initialize reStruct Object
nlme::Initialize.varFunc Initialize varFunc Object
nlme::LDEsysMat Generate system matrix for LDEs
nlme::matrix<- Assign Matrix Values
nlme::matrix<-.pdMat Assign Matrix to a pdMat or pdBlocked Object
nlme::matrix<-.reStruct Assign reStruct Matrices
nlme::Names Names Associated with an Object
nlme::Names.formula Extract Names from a formula
nlme::Names.pdBlocked Names of a pdBlocked Object
nlme::Names.pdMat Names of a pdMat Object
nlme::Names.reStruct Names of an reStruct Object
nlme::VarCorr Extract variance and correlation components
nlme::Variogram Calculate Semi-variogram
nlme::Variogram.corExp Calculate Semi-variogram for a corExp Object
nlme::Variogram.corGaus Calculate Semi-variogram for a corGaus Object
nlme::Variogram.corLin Calculate Semi-variogram for a corLin Object
nlme::Variogram.corRatio Calculate Semi-variogram for a corRatio Object
nlme::Variogram.corSpatial Calculate Semi-variogram for a corSpatial Object
nlme::Variogram.corSpher Calculate Semi-variogram for a corSpher Object
nlme::Variogram.default Calculate Semi-variogram
nlme::Variogram.gls Calculate Semi-variogram for Residuals from a gls Object
nlme::Variogram.lme Calculate Semi-variogram for Residuals from an lme Object
nlme::allCoef Extract Coefficients from a Set of Objects
nlme::anova.gls Compare Likelihoods of Fitted Objects
nlme::anova.lme Compare Likelihoods of Fitted Objects
nlme::as.matrix.corStruct Matrix of a corStruct Object
nlme::as.matrix.pdMat Matrix of a pdMat Object
nlme::as.matrix.reStruct Matrices of an reStruct Object
nlme::asOneFormula Combine Formulas of a Set of Objects
nlme::augPred Augmented Predictions
nlme::coef.corStruct Coefficients of a corStruct Object
nlme::coef.gnls Extract gnls Coefficients
nlme::coef.lmList Extract lmList Coefficients
nlme::coef.lme Extract lme Coefficients
nlme::coef.modelStruct Extract modelStruct Object Coefficients
nlme::coef.pdMat pdMat Object Coefficients
nlme::coef.reStruct reStruct Object Coefficients
nlme::coef.varFunc varFunc Object Coefficients
nlme::collapse Collapse According to Groups
nlme::collapse.groupedData Collapse a groupedData Object
nlme::compareFits Compare Fitted Objects
nlme::comparePred Compare Predictions
nlme::corAR1 AR(1) Correlation Structure
nlme::corARMA ARMA(p,q) Correlation Structure
nlme::corCAR1 Continuous AR(1) Correlation Structure
nlme::corClasses Correlation Structure Classes
nlme::corCompSymm Compound Symmetry Correlation Structure
nlme::corExp Exponential Correlation Structure
nlme::corFactor Factor of a Correlation Matrix
nlme::corFactor.corCompSymm Factor of a corStruct Object Matrix
nlme::corGaus Gaussian Correlation Structure
nlme::corLin Linear Correlation Structure
nlme::corMatrix Extract Correlation Matrix
nlme::corMatrix.corStruct Matrix of a corStruct Object
nlme::corMatrix.pdBlocked Extract Correlation Matrix from a pdMat Object
nlme::corMatrix.reStruct Extract Correlation Matrix from Components of an reStruct Object
nlme::corNatural General correlation in natural parameterization
nlme::corRatio Rational Quadratic Correlation Structure
nlme::corSpatial Spatial Correlation Structure
nlme::corSpher Spherical Correlation Structure
nlme::corSymm General Correlation Structure
nlme::fdHess Finite difference Hessian
nlme::fitted.glsStruct Calculate glsStruct Fitted Values
nlme::fitted.gnlsStruct Calculate gnlsStruct Fitted Values
nlme::fitted.lmList Extract lmList Fitted Values
nlme::fitted.lme Extract lme Fitted Values
nlme::fitted.lmeStruct Calculate lmeStruct Fitted Values
nlme::fitted.nlmeStruct Calculate nlmeStruct Fitted Values
nlme::fixed.effects Extract Fixed Effects
nlme::fixed.effects.lmList Extract lmList Fixed Effects
nlme::formula.pdBlocked Extract pdBlocked Formula
nlme::formula.pdMat Extract pdMat Formula
nlme::formula.reStruct Extract reStruct Object Formula
nlme::getCovariate Extract Covariate from an Object
nlme::getCovariate.corStruct Extract corStruct Object Covariate
nlme::getCovariate.data.frame Extract Data Frame Covariate
nlme::getCovariate.varFunc Extract varFunc Covariate
nlme::getCovariateFormula Extract Covariates Formula
nlme::getData Extract Data from an Object
nlme::getData.gls Extract gls Object Data
nlme::getData.lmList Extract lmList Object Data
nlme::getData.lme Extract lme Object Data
nlme::getGroups Extract Grouping Factors from an Object
nlme::getGroups.corStruct Extract corStruct Groups
nlme::getGroups.data.frame Extract Groups from a Data Frame
nlme::getGroups.gls Extract gls Object Groups
nlme::getGroups.lmList Extract lmList Object Groups
nlme::getGroups.lme Extract lme Object Groups
nlme::getGroups.varFunc Extract varFunc Groups
nlme::getGroupsFormula Extract Grouping Formula
nlme::getResponse Extract Response Variable from an Object
nlme::getResponseFormula Extract Formula Specifying Response Variable
nlme::getVarCov Extract variance-covariance matrix
nlme::gls Fit Linear Model Using Generalized Least Squares
nlme::glsControl Control Values for gls Fit
nlme::glsObject Fitted gls Object
nlme::glsStruct Generalized Least Squares Structure
nlme::gnls Fit Nonlinear Model Using Generalized Least Squares
nlme::gnlsControl Control Values for gnls Fit
nlme::gnlsObject Fitted gnls Object
nlme::gnlsStruct Generalized Nonlinear Least Squares Structure
nlme::intervals Confidence Intervals on Coefficients
nlme::intervals.gls Confidence Intervals on gls Parameters
nlme::intervals.lmList Confidence Intervals on lmList Coefficients
nlme::intervals.lme Confidence Intervals on lme Parameters
nlme::isInitialized Check if Object is Initialized
nlme::lmList List of lm Objects with a Common Model
nlme::lmList.groupedData lmList Fit from a groupedData Object
nlme::lme Linear Mixed-Effects Models
nlme::lme.groupedData LME fit from groupedData Object
nlme::lme.lmList LME fit from lmList Object
nlme::lmeControl Specifying Control Values for lme Fit
nlme::lmeObject Fitted lme Object
nlme::lmeStruct Linear Mixed-Effects Structure
nlme::logDet Extract the Logarithm of the Determinant
nlme::logDet.corStruct Extract corStruct Log-Determinant
nlme::logDet.pdMat Extract Log-Determinant from a pdMat Object
nlme::logDet.reStruct Extract reStruct Log-Determinants
nlme::logLik.corStruct Extract corStruct Log-Likelihood
nlme::logLik.glsStruct Log-Likelihood of a glsStruct Object
nlme::logLik.gnls Log-Likelihood of a gnls Object
nlme::logLik.gnlsStruct Log-Likelihood of a gnlsStruct Object
nlme::logLik.lmList Log-Likelihood of an lmList Object
nlme::logLik.lme Log-Likelihood of an lme Object
nlme::logLik.lmeStruct Log-Likelihood of an lmeStruct Object
nlme::logLik.reStruct Calculate reStruct Log-Likelihood
nlme::logLik.varFunc Extract varFunc logLik
nlme::model.matrix.reStruct reStruct Model Matrix
nlme::needUpdate Check if Update is Needed
nlme::needUpdate.modelStruct Check if a modelStruct Object Needs Updating
nlme::nlme Nonlinear Mixed-Effects Models
nlme::nlme.nlsList NLME fit from nlsList Object
nlme::nlmeControl Control Values for nlme Fit
nlme::nlmeObject Fitted nlme Object
nlme::nlmeStruct Nonlinear Mixed-Effects Structure
nlme::nlsList List of nls Objects with a Common Model
nlme::nlsList.selfStart nlsList Fit from a selfStart Function
nlme::pairs.compareFits Pairs Plot of compareFits Object
nlme::pairs.lmList Pairs Plot of an lmList Object
nlme::pairs.lme Pairs Plot of an lme Object
nlme::pdBlocked Positive-Definite Block Diagonal Matrix
nlme::pdClasses Positive-Definite Matrix Classes
nlme::pdCompSymm Positive-Definite Matrix with Compound Symmetry Structure
nlme::pdConstruct Construct pdMat Objects
nlme::pdConstruct.pdBlocked Construct pdBlocked Objects
nlme::pdDiag Diagonal Positive-Definite Matrix
nlme::pdFactor Square-Root Factor of a Positive-Definite Matrix
nlme::pdFactor.reStruct Extract Square-Root Factor from Components of an reStruct Object
nlme::pdIdent Multiple of the Identity Positive-Definite Matrix
nlme::pdLogChol General Positive-Definite Matrix
nlme::pdMat Positive-Definite Matrix
nlme::pdMatrix Extract Matrix or Square-Root Factor from a pdMat Object
nlme::pdMatrix.reStruct Extract Matrix or Square-Root Factor from Components of an reStruct Object
nlme::pdNatural General Positive-Definite Matrix in Natural Parametrization
nlme::pdSymm General Positive-Definite Matrix
nlme::phenoModel Model function for the Phenobarb data
nlme::plot.ACF Plot an ACF Object
nlme::plot.Variogram Plot a Variogram Object
nlme::plot.augPred Plot an augPred Object
nlme::plot.compareFits Plot a compareFits Object
nlme::plot.gls Plot a gls Object
nlme::plot.intervals.lmList Plot lmList Confidence Intervals
nlme::plot.lmList Plot an lmList Object
nlme::plot.lme Plot an lme or nls object
nlme::plot.nffGroupedData Plot an nffGroupedData Object
nlme::plot.nfnGroupedData Plot an nfnGroupedData Object
nlme::plot.nmGroupedData Plot an nmGroupedData Object
nlme::plot.ranef.lmList Plot a ranef.lmList Object
nlme::plot.ranef.lme Plot a ranef.lme Object
nlme::pooledSD Extract Pooled Standard Deviation
nlme::predict.gls Predictions from a gls Object
nlme::predict.gnls Predictions from a gnls Object
nlme::predict.lmList Predictions from an lmList Object
nlme::predict.lme Predictions from an lme Object
nlme::predict.nlme Predictions from an nlme Object
nlme::print.summary.pdMat Print a summary.pdMat Object
nlme::print.varFunc Print a varFunc Object
nlme::qqnorm.gls Normal Plot of Residuals from a gls Object
nlme::qqnorm.lm Normal Plot of Residuals or Random Effects from an lme Object
nlme::quinModel Model function for the Quinidine data
nlme::random.effects Extract Random Effects
nlme::random.effects.lmList Extract lmList Random Effects
nlme::ranef.lme Extract lme Random Effects
nlme::reStruct Random Effects Structure
nlme::recalc Recalculate Condensed Linear Model Object
nlme::recalc.corStruct Recalculate for corStruct Object
nlme::recalc.modelStruct Recalculate for a modelStruct Object
nlme::recalc.reStruct Recalculate for an reStruct Object
nlme::recalc.varFunc Recalculate for varFunc Object
nlme::residuals.gls Extract gls Residuals
nlme::residuals.glsStruct Calculate glsStruct Residuals
nlme::residuals.gnlsStruct Calculate gnlsStruct Residuals
nlme::residuals.lmList Extract lmList Residuals
nlme::residuals.lme Extract lme Residuals
nlme::residuals.lmeStruct Calculate lmeStruct Residuals
nlme::residuals.nlmeStruct Calculate nlmeStruct Residuals
nlme::simulate.lme Simulate Results from 'lme' Models
nlme::solve.pdMat Calculate Inverse of a Positive-Definite Matrix
nlme::solve.reStruct Apply Solve to an reStruct Object
nlme::splitFormula Split a Formula
nlme::summary.corStruct Summarize a corStruct Object
nlme::summary.gls Summarize a Generalized Least Squares 'gls' Object
nlme::summary.lmList Summarize an lmList Object
nlme::summary.lme Summarize an lme Object
nlme::summary.modelStruct Summarize a modelStruct Object
nlme::summary.nlsList Summarize an nlsList Object
nlme::summary.pdMat Summarize a pdMat Object
nlme::summary.varFunc Summarize "varFunc" Object
nlme::update.modelStruct Update a modelStruct Object
nlme::update.varExp Update varFunc Object
nlme::varClasses Variance Function Classes
nlme::varComb Combination of Variance Functions
nlme::varConstPower Constant Plus Power Variance Function
nlme::varConstProp Constant Plus Proportion Variance Function
nlme::varExp Exponential Variance Function
nlme::varFixed Fixed Variance Function
nlme::varFunc Variance Function Structure
nlme::varIdent Constant Variance Function
nlme::varPower Power Variance Function
nlme::varWeights Extract Variance Function Weights
nlme::varWeights.glsStruct Variance Weights for glsStruct Object
nlme::varWeights.lmeStruct Variance Weights for lmeStruct Object
nnet::multinom Fit Multinomial Log-linear Models
splines::asVector Coerce an Object to a Vector
splines::backSpline Monotone Inverse Spline
splines::interpSpline Create an Interpolation Spline
splines::periodicSpline Create a Periodic Interpolation Spline
splines::polySpline Piecewise Polynomial Spline Representation
splines::predict.bSpline Evaluate a Spline at New Values of x
splines::splineDesign Design Matrix for B-splines
splines::splineKnots Knot Vector from a Spline
splines::splineOrder Determine the Order of a Spline
splines::splines-package Regression Spline Functions and Classes
splines::xyVector Construct an 'xyVector' Object
stats::add1 Add or Drop All Possible Single Terms to a Model
stats::AIC Akaike's An Information Criterion
stats::alias Find Aliases (Dependencies) in a Model
stats::anova.glm Analysis of Deviance for Generalized Linear Model Fits
stats::anova.lm ANOVA for Linear Model Fits
stats::anova.mlm Comparisons between Multivariate Linear Models
stats::anova Anova Tables
stats::aov Fit an Analysis of Variance Model
stats::asOneSidedFormula Convert to One-Sided Formula
stats::case.names Case and Variable Names of Fitted Models
stats::coef Extract Model Coefficients
stats::confint Confidence Intervals for Model Parameters
stats::deviance Model Deviance
stats::df.residual Residual Degrees-of-Freedom
stats::dummy.coef Extract Coefficients in Original Coding
stats::eff.aovlist Compute Efficiencies of Multistratum Analysis of Variance
stats::effects Effects from Fitted Model
stats::extractAIC Extract AIC from a Fitted Model
stats::add.scope Compute Allowed Changes in Adding to or Dropping from a Formula
stats::family Family Objects for Models
stats::fitted.values Extract Model Fitted Values
stats::formula.nls Extract Model Formula from nls Object
stats::formula Model Formulae
stats::getInitial Get Initial Parameter Estimates
stats::glm.control Auxiliary for Controlling GLM Fitting
stats::glm Fitting Generalized Linear Models
stats::family.glm Accessing Generalized Linear Model Fits
stats::is.empty.model Test if a Model's Formula is Empty
stats::family.lm Accessing Linear Model Fits
stats::logLik Extract Log-Likelihood
stats::loglin Fitting Log-Linear Models
stats::make.link Create a Link for GLM Families
stats::makepredictcall Utility Function for Safe Prediction
stats::manova Multivariate Analysis of Variance
stats::mauchly.test Mauchly's Test of Sphericity
stats::model.extract Extract Components from a Model Frame
stats::model.frame Extracting the Model Frame from a Formula or Fit
stats::model.matrix Construct Design Matrices
stats::model.tables Compute Tables of Results from an Aov Model Fit
stats::naresid Adjust for Missing Values
stats::naprint Adjust for Missing Values
stats::nls.control Control the Iterations in nls
stats::nls Nonlinear Least Squares
stats::nobs Extract the Number of Observations from a Fit.
stats::numericDeriv Evaluate Derivatives Numerically
stats::offset Include an Offset in a Model Formula
stats::plot.profile.nls Plot a profile.nls Object
stats::power Create a Power Link Object
stats::predict.glm Predict Method for GLM Fits
stats::predict.nls Predicting from Nonlinear Least Squares Fits
stats::preplot Pre-computations for a Plotting Object
stats::profile.nls Method for Profiling nls Objects
stats::profile Generic Function for Profiling Models
stats::proj Projections of Models
stats::relevel Reorder Levels of Factor
stats::replications Number of Replications of Terms
stats::residuals Extract Model Residuals
stats::se.contrast Standard Errors for Contrasts in Model Terms
stats::selfStart Construct Self-starting Nonlinear Models
stats::sigma Extract Residual Standard Deviation 'Sigma'
stats::simulate Simulate Responses
stats::SSasymp Self-Starting Nls Asymptotic Regression Model
stats::SSasympOff Self-Starting Nls Asymptotic Regression Model with an Offset
stats::SSasympOrig Self-Starting Nls Asymptotic Regression Model through the Origin
stats::SSbiexp Self-Starting Nls Biexponential model
stats::SSD SSD Matrix and Estimated Variance Matrix in Multivariate Models
stats::SSfol Self-Starting Nls First-order Compartment Model
stats::SSfpl Self-Starting Nls Four-Parameter Logistic Model
stats::SSgompertz Self-Starting Nls Gompertz Growth Model
stats::SSlogis Self-Starting Nls Logistic Model
stats::SSmicmen Self-Starting Nls Michaelis-Menten Model
stats::SSweibull Self-Starting Nls Weibull Growth Curve Model
stats::stat.anova GLM Anova Statistics
stats::step Choose a model by AIC in a Stepwise Algorithm
stats::summary.aov Summarize an Analysis of Variance Model
stats::summary.glm Summarizing Generalized Linear Model Fits
stats::summary.lm Summarizing Linear Model Fits
stats::summary.manova Summary Method for Multivariate Analysis of Variance
stats::summary.nls Summarizing Non-Linear Least-Squares Model Fits
stats::terms.formula Construct a terms Object from a Formula
stats::terms.object Description of Terms Objects
stats::terms Model Terms
stats::TukeyHSD Compute Tukey Honest Significant Differences
stats::update.formula Model Updating
stats::update Update and Re-fit a Model Call
stats::vcov Calculate Variance-Covariance Matrix for a Fitted Model Object
stats::weights Extract Model Weights
stats::C Sets Contrasts for a Factor
stats4::mle Maximum Likelihood Estimation
stats4::stats4-package Statistical Functions using S4 Classes
survival::anova.coxph Analysis of Deviance for a Cox model.
survival::attrassign.default Create new-style "assign" attribute
survival::clogit Conditional logistic regression
survival::yates Population prediction
survival::yates_setup Method for adding new models to the 'yates' function.