Mixed GAM Computation Vehicle with Automatic Smoothness Estimation

anova.gam | Approximate hypothesis tests related to GAM fits |

bam | Generalized additive models for very large datasets |

bam.update | Update a strictly additive bam model for new data. |

bandchol | Choleski decomposition of a band diagonal matrix |

Beta | GAM beta regression family |

blas.thread.test | BLAS thread safety |

bug.reports.mgcv | Reporting mgcv bugs. |

chol.down | Deletion and rank one Cholesky factor update |

choose.k | Basis dimension choice for smooths |

cnorm | GAM censored normal family for log-normal AFT and Tobit... |

columb | Reduced version of Columbus OH crime data |

concurvity | GAM concurvity measures |

coxph | Additive Cox Proportional Hazard Model |

coxpht | Additive Cox proportional hazard models with time varying... |

cSplineDes | Evaluate cyclic B spline basis |

dDeta | Obtaining derivative w.r.t. linear predictor |

dpnorm | Stable evaluation of difference between normal c.d.f.s |

exclude.too.far | Exclude prediction grid points too far from data |

extract.lme.cov | Extract the data covariance matrix from an lme object |

factor.smooth | Factor smooth interactions in GAMs |

family.mgcv | Distribution families in mgcv |

FFdes | Level 5 fractional factorial designs |

fixDependence | Detect linear dependencies of one matrix on another |

fix.family.link | Modify families for use in GAM fitting and checking |

formula.gam | GAM formula |

formXtViX | Form component of GAMM covariance matrix |

fs.test | FELSPLINE test function |

full.score | GCV/UBRE score for use within nlm |

gam | Generalized additive models with integrated smoothness... |

gam2objective | Objective functions for GAM smoothing parameter 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.fit3 | P-IRLS GAM estimation with GCV, UBRE/AIC or RE/ML derivative... |

gam.fit5.post.proc | Post-processing output of gam.fit5 |

gamlss.etamu | Transform derivatives wrt mu to derivatives wrt linear... |

gamlss.gH | Calculating derivatives of log-likelihood wrt regression... |

gamm | Generalized Additive Mixed Models |

gammals | Gamma location-scale model family |

gam.mh | Simple posterior simulation with gam fits |

gam.models | Specifying generalized additive models |

gamObject | Fitted gam object |

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

gam.reparam | Finding stable orthogonal re-parameterization of the square... |

gam.scale | Scale parameter estimation in GAMs |

gam.selection | Generalized Additive Model Selection |

gam.side | Identifiability side conditions for a GAM |

gamSim | Simulate example data for GAMs |

gam.vcomp | Report gam smoothness estimates as variance components |

gaulss | Gaussian location-scale model family |

get.var | Get named variable or evaluate expression from list or... |

gevlss | Generalized Extreme Value location-scale model family |

gfam | Grouped families |

ginla | GAM Integrated Nested Laplace Approximation Newton Enhanced |

gumbls | Gumbel location-scale model family |

identifiability | Identifiability constraints |

influence.gam | Extract the diagonal of the influence/hat matrix for a GAM |

initial.sp | Starting values for multiple smoothing parameter estimation |

in.out | Which of a set of points lie within a polygon defined region |

inSide | Are points inside boundary? |

interpret.gam | Interpret a GAM formula |

jagam | Just Another Gibbs Additive Modeller: JAGS support for mgcv. |

k.check | Checking smooth basis dimension |

ldetS | Getting log generalized determinant of penalty matrices |

ldTweedie | Log Tweedie density evaluation |

linear.functional.terms | Linear functionals of a smooth in GAMs |

logLik.gam | AIC and Log likelihood for a fitted GAM |

ls.size | Size of list elements |

magic | Stable Multiple Smoothing Parameter Estimation by GCV or UBRE |

magic.post.proc | Auxilliary information from magic fit |

mgcv-FAQ | Frequently Asked Questions for package mgcv |

mgcv-package | Mixed GAM Computation Vehicle with GCV/AIC/REML/NCV... |

mgcv-parallel | Parallel computation in mgcv. |

mini.roots | Obtain square roots of penalty matrices |

missing.data | Missing data in GAMs |

model.matrix.gam | Extract model matrix from GAM fit |

mono.con | Monotonicity constraints for a cubic regression spline |

mroot | Smallest square root of matrix |

multinom | GAM multinomial logistic regression |

mvn | Multivariate normal additive models |

NCV | Neighbourhood Cross Validation |

negbin | GAM negative binomial families |

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

notExp | Functions for better-than-log positive parameterization |

notExp2 | Alternative to log parameterization for variance components |

null.space.dimension | The basis of the space of un-penalized functions for a TPRS |

ocat | GAM ordered categorical family |

one.se.rule | The one standard error rule for smoother models |

pcls | Penalized Constrained Least Squares Fitting |

pdIdnot | Overflow proof pdMat class for multiples of the identity... |

pdTens | Functions implementing a pdMat class for tensor product... |

pen.edf | Extract the effective degrees of freedom associated with each... |

place.knots | Automatically place a set of knots evenly through covariate... |

plot.gam | Default GAM plotting |

polys.plot | Plot geographic regions defined as polygons |

predict.bam | Prediction from fitted Big Additive Model model |

predict.gam | Prediction from fitted GAM model |

Predict.matrix | Prediction methods for smooth terms in a GAM |

Predict.matrix.cr.smooth | Predict matrix method functions |

Predict.matrix.soap.film | Prediction matrix for soap film smooth |

print.gam | Print a Generalized Additive Model object. |

psum.chisq | Evaluate the c.d.f. of a weighted sum of chi-squared deviates |

qq.gam | QQ plots for gam model residuals |

random.effects | Random effects in GAMs |

residuals.gam | Generalized Additive Model residuals |

rig | Generate inverse Gaussian random deviates |

rmvn | Generate from or evaluate multivariate normal or t densities. |

Rrank | Find rank of upper triangular matrix |

rTweedie | Generate Tweedie random deviates |

s | Defining smooths in GAM formulae |

scat | GAM scaled t family for heavy tailed data |

sdiag | Extract or modify diagonals of a matrix |

shash | Sinh-arcsinh location scale and shape model family |

single.index | Single index models with mgcv |

slanczos | Compute truncated eigen decomposition of a symmetric matrix |

Sl.initial.repara | Re-parametrizing model matrix X |

Sl.repara | Applying re-parameterization from log-determinant of penalty... |

Sl.setup | Setting up a list representing a block diagonal penalty... |

smooth2random | Convert a smooth to a form suitable for estimating as random... |

smoothCon | Prediction/Construction wrapper functions for GAM smooth... |

smooth.construct | Constructor functions for smooth terms in a GAM |

smooth.construct.ad.smooth.spec | Adaptive smooths in GAMs |

smooth.construct.bs.smooth.spec | Penalized B-splines in GAMs |

smooth.construct.cr.smooth.spec | Penalized Cubic regression splines in GAMs |

smooth.construct.ds.smooth.spec | Low rank Duchon 1977 splines |

smooth.construct.fs.smooth.spec | Factor smooth interactions in GAMs |

smooth.construct.gp.smooth.spec | Low rank Gaussian process smooths |

smooth.construct.mrf.smooth.spec | Markov Random Field Smooths |

smooth.construct.ps.smooth.spec | P-splines in GAMs |

smooth.construct.re.smooth.spec | Simple random effects in GAMs |

smooth.construct.so.smooth.spec | Soap film smoother constructer |

smooth.construct.sos.smooth.spec | Splines on the sphere |

smooth.construct.sz.smooth.spec | Constrained factor smooth interactions in GAMs |

smooth.construct.t2.smooth.spec | Tensor product smoothing constructor |

smooth.construct.tensor.smooth.spec | Tensor product smoothing constructor |

smooth.construct.tp.smooth.spec | Penalized thin plate regression splines in GAMs |

smooth.info | Generic function to provide extra information about smooth... |

smooth.terms | Smooth terms in GAM |

spasm.construct | Experimental sparse smoothers |

sp.vcov | Extract smoothing parameter estimator covariance matrix from... |

step.gam | Alternatives to step.gam |

summary.gam | Summary for a GAM fit |

t2 | Define alternative tensor product smooths in GAM formulae |

te | Define tensor product smooths or tensor product interactions... |

tensor.prod.model.matrix | Row Kronecker product/ tensor product smooth construction |

totalPenaltySpace | Obtaining (orthogonal) basis for null space and range of the... |

trichol | Choleski decomposition of a tri-diagonal matrix |

trind.generator | Generates index arrays for upper triangular storage |

Tweedie | GAM Tweedie families |

twlss | Tweedie location scale family |

uniquecombs | find the unique rows in a matrix |

vcov.gam | Extract parameter (estimator) covariance matrix from GAM fit |

vis.gam | Visualization of GAM objects |

XWXd | Internal functions for discretized model matrix handling |

ziP | GAM zero-inflated (hurdle) Poisson regression family |

ziplss | Zero inflated (hurdle) Poisson location-scale model family |

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