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mgcv (version 1.7-8)

GAMs with GCV/AIC/REML smoothness estimation and GAMMs by PQL

Description

Routines for GAMs and other generalized ridge regression with multiple smoothing parameter selection by GCV, REML or UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam() function.

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Version

Install

install.packages('mgcv')

Monthly Downloads

106,646

Version

1.7-8

License

GPL (>= 2)

Maintainer

Simon Wood

Last Published

October 10th, 2011

Functions in mgcv (1.7-8)

gam.check

Some diagnostics for a fitted gam model
choose.k

Basis dimension choice for smooths
gam2objective

Objective functions for GAM smoothing parameter estimation
pdIdnot

Overflow proof pdMat class for multiples of the identity matrix
gam.outer

Minimize GCV or UBRE score of a GAM using `outer' iteration
logLik.gam

Extract the log likelihood for a fitted GAM
uniquecombs

find the unique rows in a matrix
Predict.matrix

Prediction methods for smooth terms in a GAM
smooth.construct.sos.smooth.spec

Splines on the sphere
vcov.gam

Extract parameter (estimator) covariance matrix from GAM fit
columb

Reduced version of Columbus OH crime data
fixDependence

Detect linear dependencies of one matrix on another
Tweedie

GAM Tweedie family
full.score

GCV/UBRE score for use within nlm
gam.selection

Generalized Additive Model Selection
smooth.construct

Constructor functions for smooth terms in a GAM
formXtViX

Form component of GAMM covariance matrix
notExp

Functions for better-than-log positive parameterization
te

Define tensor product smooths in GAM formulae
pdTens

Functions implementing a pdMat class for tensor product smooths
gamObject

Fitted gam object
cSplineDes

Evaluate cyclic B spline basis
smooth.construct.mrf.smooth.spec

Markov Random Field Smooths
smooth.construct.cr.smooth.spec

Penalized Cubic regression splines in GAMs
concurvity

GAM concurvity measures
gam.vcomp

Report gam smoothness estimates as variance components
polys.plot

Plot geographic regions defined as polygons
new.name

Obtain a name for a new variable that is not already in use
anova.gam

Approximate hypothesis tests related to GAM fits
Predict.matrix.cr.smooth

Predict matrix method functions
get.var

Get named variable or evaluate expression from list or data.frame
gamSim

Simulate example data for GAMs
print.gam

Print a Generalized Additive Model object.
exclude.too.far

Exclude prediction grid points too far from data
notExp2

Alternative to log parameterization for variance components
plot.gam

Default GAM plotting
gam.control

Setting GAM fitting defaults
rTweedie

Generate Tweedie random deviates
step.gam

Alternatives to step.gam
mgcv.control

Setting mgcv defaults
vis.gam

Visualization of GAM objects
smooth.construct.fs.smooth.spec

Factor smooth interactions in GAMs
t2

Define alternative tensor product smooths in GAM formulae
mroot

Smallest square root of matrix
smooth.construct.ds.smooth.spec

Low rank Duchon 1977 splines
gam.side

Identifiability side conditions for a GAM
smooth.terms

Smooth terms in GAM
magic.post.proc

Auxilliary information from magic fit
in.out

Which of a set of points lie within a polygon defined region
model.matrix.gam

Extract model matrix from GAM fit
smoothCon

Prediction/Construction wrapper functions for GAM smooth terms
ls.size

Size of list elements
linear.functional.terms

Linear functionals of a smooth in GAMs
summary.gam

Summary for a GAM fit
initial.sp

Starting values for multiple smoothing parameter estimation
smooth.construct.ps.smooth.spec

P-splines in GAMs
smooth.construct.tp.smooth.spec

Penalized thin plate regression splines in GAMs
fix.family.link

Modify families for use in GAM fitting and checking
gam.fit

GAM P-IRLS estimation with GCV/UBRE smoothness estimation
predict.gam

Prediction from fitted GAM model
formula.gam

GAM formula
gam.convergence

GAM convergence and performance issues
smooth.construct.ad.smooth.spec

Adaptive smooths in GAMs
bam.update

Update a strictly additive bam model for new data.
extract.lme.cov

Extract the data covariance matrix from an lme object
mono.con

Monotonicity constraints for a cubic regression spline
qq.gam

QQ plots for gam model residuals
ldTweedie

Log Tweedie density evaluation
rig

Generate inverse Gaussian random deviates
residuals.gam

Generalized Additive Model residuals
sp.vcov

Extract smoothing parameter estimator covariance matrix from (RE)ML GAM fit
s

Defining smooths in GAM formulae
bam

Generalized additive models for very large datasets
influence.gam

Extract the diagonal of the influence/hat matrix for a GAM
mgcv

Multiple Smoothing Parameter Estimation by GCV or UBRE
mgcv-FAQ

Frequently Asked Questions for package mgcv
place.knots

Automatically place a set of knots evenly through covariate values
smooth.construct.tensor.smooth.spec

Tensor product smoothing constructor
gamm

Generalized Additive Mixed Models
tensor.prod.model.matrix

Utility functions for constructing tensor product smooths
magic

Stable Multiple Smoothing Parameter Estimation by GCV or UBRE
pcls

Penalized Constrained Least Squares Fitting
gam

Generalized additive models with integrated smoothness estimation
gam.models

Specifying generalized additive models
interpret.gam

Interpret a GAM formula
negbin

GAM negative binomial family
slanczos

Compute truncated eigen decomposition of a symmetric matrix
spasm.construct

Experimental sparse smoothers
null.space.dimension

The basis of the space of un-penalized functions for a TPRS
gam.fit3

P-IRLS GAM estimation with GCV & UBRE/AIC or RE/ML derivative calculation
mgcv-package

GAMs with GCV/AIC/REML smoothness estimation and GAMMs by REML/PQL
pen.edf

Extract the effective degrees of freedom associated with each penalty in a gam fit
smooth.construct.re.smooth.spec

Simple random effects in GAMs
random.effects

Random effects in GAMs