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mgcv (version 1.8-6)

Mixed GAM Computation Vehicle with GCV/AIC/REML Smoothness Estimation

Description

GAMs, GAMMs and other generalized ridge regression with multiple smoothing parameter estimation by GCV, REML or UBRE/AIC. Includes a gam() function, a wide variety of smoothers, JAGS support and distributions beyond the exponential family.

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Version

Install

install.packages('mgcv')

Monthly Downloads

106,646

Version

1.8-6

License

GPL (>= 2)

Maintainer

Simon Wood

Last Published

March 31st, 2015

Functions in mgcv (1.8-6)

gam.convergence

GAM convergence and performance issues
extract.lme.cov

Extract the data covariance matrix from an lme object
fixDependence

Detect linear dependencies of one matrix on another
Predict.matrix

Prediction methods for smooth terms in a GAM
cox.ph

Additive Cox Proportional Hazard Model
pdIdnot

Overflow proof pdMat class for multiples of the identity matrix
mvn

Multivariate normal additive models
smooth.construct.ps.smooth.spec

P-splines in GAMs
gam.control

Setting GAM fitting defaults
Predict.matrix.soap.film

Prediction matrix for soap film smooth
ldTweedie

Log Tweedie density evaluation
vcov.gam

Extract parameter (estimator) covariance matrix from GAM fit
Tweedie

GAM Tweedie families
exclude.too.far

Exclude prediction grid points too far from data
gam.vcomp

Report gam smoothness estimates as variance components
place.knots

Automatically place a set of knots evenly through covariate values
gamSim

Simulate example data for GAMs
get.var

Get named variable or evaluate expression from list or data.frame
mgcv.FAQ

Frequently Asked Questions for package mgcv
influence.gam

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

Just Another Gibbs Additive Modeller: JAGS support for mgcv.
smooth.construct.fs.smooth.spec

Factor smooth interactions in GAMs
Rrank

Find rank of upper triangular matrix
fix.family.link

Modify families for use in GAM fitting and checking
cSplineDes

Evaluate cyclic B spline basis
concurvity

GAM concurvity measures
betar

GAM beta regression family
gam

Generalized additive models with integrated smoothness estimation
formula.gam

GAM formula
anova.gam

Approximate hypothesis tests related to GAM fits
family.mgcv

Distribution families in mgcv
mono.con

Monotonicity constraints for a cubic regression spline
predict.bam

Prediction from fitted Big Additive Model model
gam.scale

Scale parameter estimation in GAMs
in.out

Which of a set of points lie within a polygon defined region
inSide

Are points inside boundary?
initial.sp

Starting values for multiple smoothing parameter estimation
gam.fit

GAM P-IRLS estimation with GCV/UBRE smoothness estimation
single.index

Single index models with mgcv
pcls

Penalized Constrained Least Squares Fitting
plot.gam

Default GAM plotting
predict.gam

Prediction from fitted GAM model
mgcv.package

Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation and GAMMs by REML/PQL
bam

Generalized additive models for very large datasets
step.gam

Alternatives to step.gam
mroot

Smallest square root of matrix
smooth.construct.t2.smooth.spec

Tensor product smoothing constructor
ls.size

Size of list elements
null.space.dimension

The basis of the space of un-penalized functions for a TPRS
rig

Generate inverse Gaussian random deviates
formXtViX

Form component of GAMM covariance matrix
smooth.construct.tensor.smooth.spec

Tensor product smoothing constructor
residuals.gam

Generalized Additive Model residuals
interpret.gam

Interpret a GAM formula
negbin

GAM negative binomial families
gam.check

Some diagnostics for a fitted gam model
gam2objective

Objective functions for GAM smoothing parameter estimation
random.effects

Random effects in GAMs
ziplss

Zero inflated Poisson location-scale model family
polys.plot

Plot geographic regions defined as polygons
magic

Stable Multiple Smoothing Parameter Estimation by GCV or UBRE
gaulss

Gaussian location-scale model family
smooth.construct.ad.smooth.spec

Adaptive smooths in GAMs
notExp

Functions for better-than-log positive parameterization
smooth.construct

Constructor functions for smooth terms in a GAM
gam.selection

Generalized Additive Model Selection
ocat

GAM ordered categorical family
columb

Reduced version of Columbus OH crime data
scat

GAM scaled t family for heavy tailed data
smooth.construct.mrf.smooth.spec

Markov Random Field Smooths
choose.k

Basis dimension choice for smooths
gam.fit3

P-IRLS GAM estimation with GCV & UBRE/AIC or RE/ML derivative calculation
gam.models

Specifying generalized additive models
pen.edf

Extract the effective degrees of freedom associated with each penalty in a gam fit
t2

Define alternative tensor product smooths in GAM formulae
new.name

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

Print a Generalized Additive Model object.
sp.vcov

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

Defining smooths in GAM formulae
smooth.construct.tp.smooth.spec

Penalized thin plate regression splines in GAMs
smoothCon

Prediction/Construction wrapper functions for GAM smooth terms
mgcv.parallel

Parallel computation in mgcv.
rmvn

Generate multivariate normal deviates
vis.gam

Visualization of GAM objects
gamObject

Fitted gam object
tensor.prod.model.matrix

Utility functions for constructing tensor product smooths
smooth.construct.cr.smooth.spec

Penalized Cubic regression splines in GAMs
rTweedie

Generate Tweedie random deviates
qq.gam

QQ plots for gam model residuals
fs.test

FELSPLINE test function
logLik.gam

Log likelihood for a fitted GAM, for AIC
smooth.construct.ds.smooth.spec

Low rank Duchon 1977 splines
gamm

Generalized Additive Mixed Models
pdTens

Functions implementing a pdMat class for tensor product smooths
smooth.construct.so.smooth.spec

Soap film smoother constructer
notExp2

Alternative to log parameterization for variance components
te

Define tensor product smooths or tensor product interactions in GAM formulae
smooth.terms

Smooth terms in GAM
spasm.construct

Experimental sparse smoothers
linear.functional.terms

Linear functionals of a smooth in GAMs
summary.gam

Summary for a GAM fit
bam.update

Update a strictly additive bam model for new data.
gam.outer

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

Identifiability side conditions for a GAM
magic.post.proc

Auxilliary information from magic fit
smooth.construct.re.smooth.spec

Simple random effects in GAMs
uniquecombs

find the unique rows in a matrix
Predict.matrix.cr.smooth

Predict matrix method functions
full.score

GCV/UBRE score for use within nlm
model.matrix.gam

Extract model matrix from GAM fit
slanczos

Compute truncated eigen decomposition of a symmetric matrix
smooth.construct.sos.smooth.spec

Splines on the sphere
ziP

GAM zero-inflated Poisson regression family