GAMs with GCV smoothness estimation and GAMMs by REML/PQL


Documentation for package `mgcv' version 1.2-3

Help Pages

anova.gam Hypothesis tests related to GAM fits
coef.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
coef.pdTens Functions implementing a pdMat class for tensor product smooths
corMatrix.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
Dim.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
exclude.too.far Exclude prediction grid points too far from data
extract.lme.cov Extract the data covariance matrix from an lme object
extract.lme.cov2 Extract the data covariance matrix from an lme object
fix.family.link Modify families for use in GAM fitting
fix.family.var Modify families for use in GAM fitting
fixDependence Detect linear dependencies of one matrix on another
formula.gam Extract the formula from a gam object.
formXtViX Form component of GAMM covariance matrix
full.score GCV/UBRE score for use within nlm
gam Generalized additive models with integrated smoothness estimation
gam.check Some diagnostics for a fitted gam model.
gam.control Setting GAM fitting defaults
gam.convergence GAM convergence and performance issues.
gam.fit GAM P-IRLS estimation with GCV/UBRE smoothness estimation.
gam.fit2 P-IRLS GAM estimation with GCV & UBRE derivative calculation
gam.method Setting GAM fitting method
gam.models Specifying Generalized Additive Models.
gam.neg.bin GAMs with the negative binomial distribution
gam.outer Minimize GCV or UBRE score of a GAM using `outer' iteration
gam.performance GAM convergence and performance issues.
gam.selection Generalized Additive Model Selection
gam.setup Generalized Additive Model set up.
gam.side Identifiability side conditions for a GAM.
gam2derivative Objective functions for GAM smoothing parameter estimation.
gam2objective Objective functions for GAM smoothing parameter estimation.
gam3objective Objective functions for GAM smoothing parameter estimation.
gamm Generalized Additive Mixed Models
gamm.setup Generalized Additive Mixed Model set up.
gamObject Fitted gam object
get.var Get named variable or evaluate expression from list or data.frame
influence.gam Extract the diagonal of the Influence/Hat matrix for a GAM.
initial.sp Starting values for multiple smoothing parameter estimation.
interpret.gam Interpret a GAM formula
logDet.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
logLik.gam Extract the log likelihood for a fitted GAM
magic Stable Multiple Smoothing Parameter Estimation by GCV or UBRE, with optional fixed penalty
magic.post.proc Auxilliary information from magic fit
mgcv Multiple Smoothing Parameter Estimation by GCV or UBRE
mgcv.control Setting mgcv defaults
mgcv.find.theta GAMs with the negative binomial distribution
mgcv.get.scale GAMs with the negative binomial distribution
mono.con Monotonicity constraints for a cubic regression spline.
mroot Smallest square root of matrix
new.name Obtain a name for a new variable that is not already in use
notExp Functions for better-than-log positive parameterization
notLog Functions for better-than-log positive parameterization
null.space.dimension The basis of the space of un-penalized functions for a t.p.r.s.
p.spline Constructor functions for smooth terms in a GAM
pcls Penalized Constrained Least Squares Fitting
pdConstruct.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
pdConstruct.pdTens Functions implementing a pdMat class for tensor product smooths
pdFactor.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
pdFactor.pdTens Functions implementing a pdMat class for tensor product smooths
pdIdnot Overflow proof pdMat class for multiples of the identity matrix
pdMatrix.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
pdMatrix.pdTens Functions implementing a pdMat class for tensor product smooths
pdTens Functions implementing a pdMat class for tensor product smooths
persp.gam Visualization of GAM objects
place.knots Automatically place a set of knots evenly through covariate values
plot.gam Default GAM plotting
predict.gam Prediction from fitted GAM model
Predict.matrix Prediction methods for smooth terms in a GAM
Predict.matrix.cr.smooth Prediction methods for smooth terms in a GAM
Predict.matrix.cs.smooth Prediction methods for smooth terms in a GAM
Predict.matrix.cyclic.smooth Prediction methods for smooth terms in a GAM
Predict.matrix.tensor.smooth Prediction methods for smooth terms in a GAM
Predict.matrix.tprs.smooth Prediction methods for smooth terms in a GAM
Predict.matrix.ts.smooth Prediction methods for smooth terms in a GAM
PredictMat Prediction/Construction wrapper functions for GAM smooth terms
print.anova.gam Hypothesis tests related to GAM fits
print.gam Generalized Additive Model default print statement
print.summary.gam Summary for a GAM fit
residuals.gam Generalized Additive Model residuals
s Defining smooths in GAM formulae
smooth.construct Constructor functions for smooth terms in a GAM
smooth.construct.cc.smooth.spec Constructor functions for smooth terms in a GAM
smooth.construct.cr.smooth.spec Constructor functions for smooth terms in a GAM
smooth.construct.cs.smooth.spec Constructor functions for smooth terms in a GAM
smooth.construct.tensor.smooth.spec Constructor functions for smooth terms in a GAM
smooth.construct.tp.smooth.spec Constructor functions for smooth terms in a GAM
smooth.construct.ts.smooth.spec Constructor functions for smooth terms in a GAM
smoothCon Prediction/Construction wrapper functions for GAM smooth terms
solve.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
step.gam Alternatives to step.gam
summary.gam Summary for a GAM fit
summary.pdIdnot Overflow proof pdMat class for multiples of the identity matrix
summary.pdTens Functions implementing a pdMat class for tensor product smooths
te Define tensor product smooths in GAM formulae
tensor.prod.model.matrix Utility functions for constructing tensor product smooths
tensor.prod.penalties Utility functions for constructing tensor product smooths
uniquecombs find the unique rows in a matrix
vis.gam Visualization of GAM objects