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mgcv (version 1.8-24)

Mixed GAM Computation Vehicle with Automatic Smoothness Estimation

Description

Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Generalized Cross Validation and similar. 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

154,135

Version

1.8-24

License

GPL (>= 2)

Maintainer

Simon Wood

Last Published

June 18th, 2018

Functions in mgcv (1.8-24)

Reduced version of Columbus OH crime data

bug.reports.mgcv

Reporting mgcv bugs.

Transform derivatives wrt mu to derivatives wrt linear predictor

Some diagnostics for a fitted gam model

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

Starting values for multiple smoothing parameter estimation

gam.convergence

GAM convergence and performance issues

Basis dimension choice for smooths

Obtaining derivative w.r.t. linear predictor

Generalized Extreme Value location-scale model family

Report gam smoothness estimates as variance components

Simulate example data for GAMs

Setting GAM fitting defaults

GCV/UBRE score for use within nlm

Identifiability side conditions for a GAM

Generalized additive models with integrated smoothness estimation

identifiability

Identifiability constraints

Form component of GAMM covariance matrix

GAM P-IRLS estimation with GCV/UBRE smoothness estimation

exclude.too.far

Exclude prediction grid points too far from data

gam.fit5.post.proc

Post-processing output of gam.fit5

Stable Multiple Smoothing Parameter Estimation by GCV or UBRE

Distribution families in mgcv

GAM concurvity measures

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

Checking smooth basis dimension

Log Tweedie density evaluation

magic.post.proc

Auxilliary information from magic fit

Specifying generalized additive models

fix.family.link

Modify families for use in GAM fitting and checking

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

Objective functions for GAM smoothing parameter estimation

Fitted gam object

Scale parameter estimation in GAMs

Monotonicity constraints for a cubic regression spline

Are points inside boundary?

Getting log generalized determinant of penalty matrices

Generalized Additive Model Selection

Detect linear dependencies of one matrix on another

Gaussian location-scale model family

model.matrix.gam

Extract model matrix from GAM fit

Missing data in GAMs

linear.functional.terms

Linear functionals of a smooth in GAMs

Smallest square root of matrix

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

Alternative to log parameterization for variance components

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

Functions for better-than-log positive parameterization

Generate inverse Gaussian random deviates

The one standard error rule for smoother models

Generalized Additive Model residuals

AIC and Log likelihood for a fitted GAM

Penalized Constrained Least Squares Fitting

Size of list elements

GAM multinomial logistic regression

Parallel computation in mgcv.

Plot geographic regions defined as polygons

Finding stable orthogonal re-parameterization of the square root penalty.

smooth.construct

Constructor functions for smooth terms in a GAM

Default GAM plotting

Obtain square roots of penalty matrices

smooth.construct.ad.smooth.spec

Adaptive smooths in GAMs

smooth.construct.bs.smooth.spec

Penalized B-splines in GAMs

Calculating derivatives of log-likelihood wrt regression coefficients

smooth.construct.cr.smooth.spec

Penalized Cubic regression splines in GAMs

Functions implementing a pdMat class for tensor product smooths

smooth.construct.ps.smooth.spec

P-splines in GAMs

smooth.construct.gp.smooth.spec

Low rank Gaussian process smooths

Overflow proof pdMat class for multiples of the identity matrix

smooth.construct.re.smooth.spec

Simple random effects in GAMs

Print a Generalized Additive Model object.

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

spasm.construct

Experimental sparse smoothers

Interpret a GAM formula

Generalized Additive Mixed Models

Extract parameter (estimator) covariance matrix from GAM fit

QQ plots for gam model residuals

find the unique rows in a matrix

Just Another Gibbs Additive Modeller: JAGS support for mgcv.

Multivariate normal additive models

GAM scaled t family for heavy tailed data

Extract or modify diagonals of a matrix

smooth.construct.so.smooth.spec

Soap film smoother constructer

Frequently Asked Questions for package mgcv

smooth.construct.sos.smooth.spec

Splines on the sphere

null.space.dimension

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

Prediction from fitted Big Additive Model model

GAM ordered categorical family

Prediction from fitted GAM model

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

smooth.construct.mrf.smooth.spec

Markov Random Field Smooths

Single index models with mgcv

Compute truncated eigen decomposition of a symmetric matrix

Define alternative tensor product smooths in GAM formulae

GAM negative binomial families

smooth.construct.t2.smooth.spec

Tensor product smoothing constructor

smooth.construct.tensor.smooth.spec

Tensor product smoothing constructor

Define tensor product smooths or tensor product interactions in GAM formulae

Visualization of GAM objects

smooth.construct.tp.smooth.spec

Penalized thin plate regression splines in GAMs

Prediction/Construction wrapper functions for GAM smooth terms

Convert a smooth to a form suitable for estimating as random effect

GAM zero-inflated Poisson regression family

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

tensor.prod.model.matrix

Utility functions for constructing tensor product smooths

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

totalPenaltySpace

Obtaining (orthogonal) basis for null space and range of the penalty matrix

Automatically place a set of knots evenly through covariate values

Smooth terms in GAM

Zero inflated Poisson location-scale model family

Generate Tweedie random deviates

Generate multivariate normal deviates

Random effects in GAMs

Defining smooths in GAM formulae

smooth.construct.ds.smooth.spec

Low rank Duchon 1977 splines

smooth.construct.fs.smooth.spec

Factor smooth interactions in GAMs

Alternatives to step.gam

trind.generator

Generates index arrays for upper triangular storage

Summary for a GAM fit

Choleski decomposition of a tri-diagonal matrix

Applying re-parameterization from log-determinant of penalty matrix to model matrix.

Sl.initial.repara

Re-parametrizing model matrix X

Find rank of upper triangular matrix

GAM Tweedie families

Predict.matrix.soap.film

Prediction matrix for soap film smooth

Predict.matrix.cr.smooth

Predict matrix method functions

Setting up a list representing a block diagonal penalty matrix

GAM beta regression family

Prediction methods for smooth terms in a GAM

Approximate hypothesis tests related to GAM fits

Additive Cox Proportional Hazard Model

Evaluate cyclic B spline basis

Choleski decomposition of a band diagonal matrix

Update a strictly additive bam model for new data.

Generalized additive models for very large datasets

Additive Cox proportional hazard models with time varying covariates

extract.lme.cov

Extract the data covariance matrix from an lme object

FELSPLINE test function