Man pages for mgcv
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 |
| bcg | Censored Box-Cox Gaussian family |
| 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 |
| clog | GAM censored logistic distribution family for log-logistic... |
| 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... |
| cpois | GAM censored Poisson family |
| 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 |
| dppois | Stable evaluation of difference between Poisson 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 |
| 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 |
| lp | Basic linear programming |
| ls.size | Size of list elements |
| magic | Stable Multiple Smoothing Parameter Estimation by GCV or UBRE |
| magic.post.proc | Auxilliary information from magic fit |
| mchol | Sparse 'chol' function |
| 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 |
| scasm | Shape constrained additive smooth models |
| 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 |
