A B C D E F G I J K L M N O P Q R S T U V X Z misc
| mgcv-package | Mixed GAM Computation Vehicle with GCV/AIC/REML/NCV smoothness estimation and GAMMs by REML/PQL | 
| adaptive.smooth | Adaptive smooths in GAMs | 
| AIC.gam | AIC and Log likelihood for a fitted GAM | 
| anova.gam | Approximate hypothesis tests related to GAM fits | 
| b.spline | Penalized B-splines in GAMs | 
| 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 | 
| betar | GAM beta regression family | 
| blas.thread.test | BLAS thread safety | 
| bug.reports.mgcv | Reporting mgcv bugs. | 
| choldrop | Deletion and rank one Cholesky factor update | 
| cholup | 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 models | 
| coef.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| coef.pdTens | Functions implementing a pdMat class for tensor product smooths | 
| columb | Reduced version of Columbus OH crime data | 
| columb.polys | Reduced version of Columbus OH crime data | 
| concurvity | GAM concurvity measures | 
| corMatrix.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| cox.ph | Additive Cox Proportional Hazard Model | 
| cox.pht | Additive Cox proportional hazard models with time varying covariates | 
| cSplineDes | Evaluate cyclic B spline basis | 
| cubic.regression.spline | Penalized Cubic regression splines in GAMs | 
| cyclic.cubic.spline | Penalized Cubic regression splines in GAMs | 
| cyclic.p.spline | P-splines in GAMs | 
| d.mvt | Generate from or evaluate multivariate normal or t densities. | 
| d.spline | Penalized B-splines in GAMs | 
| dDeta | Obtaining derivative w.r.t. linear predictor | 
| diagXVXd | Internal functions for discretized model matrix handling | 
| Dim.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| dmvn | Generate from or evaluate multivariate normal or t densities. | 
| dpnorm | Stable evaluation of difference between normal c.d.f.s | 
| Duchon.spline | Low rank Duchon 1977 splines | 
| exclude.too.far | Exclude prediction grid points too far from data | 
| extract.lme.cov | Extract the data covariance matrix from an lme object | 
| extract.lme.cov2 | Extract the data covariance matrix from an lme object | 
| factor.smooth | Factor smooth interactions in GAMs | 
| factor.smooth.interaction | Factor smooth interactions in GAMs | 
| family.mgcv | Distribution families in mgcv | 
| FFdes | Level 5 fractional factorial designs | 
| fix.family.link | Modify families for use in GAM fitting and checking | 
| fix.family.ls | Modify families for use in GAM fitting and checking | 
| fix.family.qf | Modify families for use in GAM fitting and checking | 
| fix.family.rd | Modify families for use in GAM fitting and checking | 
| fix.family.var | Modify families for use in GAM fitting and checking | 
| fixDependence | Detect linear dependencies of one matrix on another | 
| formula.gam | GAM formula | 
| formXtViX | Form component of GAMM covariance matrix | 
| fs.boundary | FELSPLINE test function | 
| fs.test | FELSPLINE test function | 
| full.score | GCV/UBRE score for use within nlm | 
| function.predictors | Linear functionals of a smooth in GAMs | 
| gam | Generalized additive models with integrated smoothness 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 calculation | 
| gam.fit5.post.proc | Post-processing output of gam.fit5 | 
| gam.mh | Simple posterior simulation with gam fits | 
| gam.models | Specifying generalized additive models | 
| gam.outer | Minimize GCV or UBRE score of a GAM using 'outer' iteration | 
| gam.performance | GAM convergence and performance issues | 
| gam.reparam | Finding stable orthogonal re-parameterization of the square root penalty. | 
| gam.scale | Scale parameter estimation in GAMs | 
| gam.selection | Generalized Additive Model Selection | 
| gam.side | Identifiability side conditions for a GAM | 
| gam.vcomp | Report gam smoothness estimates as variance components | 
| gam2derivative | Objective functions for GAM smoothing parameter estimation | 
| gam2objective | Objective functions for GAM smoothing parameter estimation | 
| gamlss.etamu | Transform derivatives wrt mu to derivatives wrt linear predictor | 
| gamlss.gH | Calculating derivatives of log-likelihood wrt regression coefficients | 
| gamm | Generalized Additive Mixed Models | 
| gammals | Gamma location-scale model family | 
| gamObject | Fitted gam object | 
| gamSim | Simulate example data for GAMs | 
| gaulss | Gaussian location-scale model family | 
| get.var | Get named variable or evaluate expression from list or data.frame | 
| gevlss | Generalized Extreme Value location-scale model family | 
| gfam | Grouped families | 
| ginla | GAM Integrated Nested Laplace Approximation Newton Enhanced | 
| gp.smooth | Low rank Gaussian process smooths | 
| grouped families | Grouped families | 
| gumbls | Gumbel location-scale model family | 
| identifiability | Identifiability constraints | 
| in.out | Which of a set of points lie within a polygon defined region | 
| influence.gam | Extract the diagonal of the influence/hat matrix for a GAM | 
| initial.sp | Starting values for multiple smoothing parameter estimation | 
| 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 | 
| logDet.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| 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 | Mixed GAM Computation Vehicle with GCV/AIC/REML/NCV smoothness estimation and GAMMs by REML/PQL | 
| mgcv.FAQ | Frequently Asked Questions for package mgcv | 
| mgcv.package | Mixed GAM Computation Vehicle with GCV/AIC/REML/NCV smoothness estimation and GAMMs by REML/PQL | 
| 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 | 
| mrf | Markov Random Field Smooths | 
| mroot | Smallest square root of matrix | 
| multinom | GAM multinomial logistic regression | 
| mvn | Multivariate normal additive models | 
| nb | GAM negative binomial families | 
| 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 | 
| notLog | Functions for better-than-log positive parameterization | 
| notLog2 | 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 | 
| ordered.categorical | GAM ordered categorical family | 
| p.spline | P-splines in GAMs | 
| pcls | Penalized Constrained Least Squares Fitting | 
| pdConstruct.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| pdConstruct.pdTens | Functions implementing a pdMat class for tensor product smooths | 
| pdFactor.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| pdFactor.pdTens | Functions implementing a pdMat class for tensor product smooths | 
| pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| pdMatrix.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| pdMatrix.pdTens | Functions implementing a pdMat class for tensor product smooths | 
| pdTens | Functions implementing a pdMat class for tensor product smooths | 
| pen.edf | Extract the effective degrees of freedom associated with each penalty in a gam fit | 
| persp.gam | Visualization of GAM objects | 
| place.knots | Automatically place a set of knots evenly through covariate values | 
| plot.gam | Default GAM plotting | 
| polys.plot | Plot geographic regions defined as polygons | 
| posterior.simulation | Simple posterior simulation with gam fits | 
| 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.Bspline.smooth | Penalized B-splines in GAMs | 
| Predict.matrix.cr.smooth | Predict matrix method functions | 
| Predict.matrix.cs.smooth | Predict matrix method functions | 
| Predict.matrix.cyclic.smooth | Predict matrix method functions | 
| Predict.matrix.duchon.spline | Low rank Duchon 1977 splines | 
| Predict.matrix.fs.interaction | Factor smooth interactions in GAMs | 
| Predict.matrix.gp.smooth | Low rank Gaussian process smooths | 
| Predict.matrix.mrf.smooth | Markov Random Field Smooths | 
| Predict.matrix.pspline.smooth | Predict matrix method functions | 
| Predict.matrix.random.effect | Simple random effects in GAMs | 
| Predict.matrix.sf | Prediction matrix for soap film smooth | 
| Predict.matrix.soap.film | Prediction matrix for soap film smooth | 
| Predict.matrix.sos.smooth | Splines on the sphere | 
| Predict.matrix.sw | Prediction matrix for soap film smooth | 
| Predict.matrix.sz.interaction | Constrained factor smooth interactions in GAMs | 
| Predict.matrix.t2.smooth | Predict matrix method functions | 
| Predict.matrix.tensor.smooth | Predict matrix method functions | 
| Predict.matrix.tprs.smooth | Predict matrix method functions | 
| Predict.matrix.ts.smooth | Predict matrix method functions | 
| Predict.matrix2 | Prediction methods for smooth terms in a GAM | 
| PredictMat | Prediction/Construction wrapper functions for GAM smooth terms | 
| print.anova.gam | Approximate hypothesis tests related to GAM fits | 
| print.gam | Print a Generalized Additive Model object. | 
| print.summary.gam | Summary for a GAM fit | 
| psum.chisq | Evaluate the c.d.f. of a weighted sum of chi-squared deviates | 
| qq.gam | QQ plots for gam model residuals | 
| r.mvt | Generate from or evaluate multivariate normal or t densities. | 
| 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 | 
| sdiag<- | Extract or modify diagonals of a matrix | 
| shash | Sinh-arcsinh location scale and shape model family | 
| signal.regression | Linear functionals of a smooth in GAMs | 
| sim2jam | Just Another Gibbs Additive Modeller: JAGS support for mgcv. | 
| single.index | Single index models with mgcv | 
| Sl.inirep | Re-parametrizing model matrix X | 
| Sl.initial.repara | Re-parametrizing model matrix X | 
| Sl.repara | Applying re-parameterization from log-determinant of penalty matrix to model matrix. | 
| Sl.setup | Setting up a list representing a block diagonal penalty matrix | 
| slanczos | Compute truncated eigen decomposition of a symmetric matrix | 
| 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.cc.smooth.spec | Penalized Cubic regression splines in GAMs | 
| smooth.construct.cp.smooth.spec | P-splines in GAMs | 
| smooth.construct.cr.smooth.spec | Penalized Cubic regression splines in GAMs | 
| smooth.construct.cs.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.sf.smooth.spec | Soap film smoother constructer | 
| smooth.construct.so.smooth.spec | Soap film smoother constructer | 
| smooth.construct.sos.smooth.spec | Splines on the sphere | 
| smooth.construct.sw.smooth.spec | Soap film smoother constructer | 
| 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.construct.ts.smooth.spec | Penalized thin plate regression splines in GAMs | 
| smooth.construct2 | Constructor functions for smooth terms in a GAM | 
| smooth.info | Generic function to provide extra information about smooth specification | 
| smooth.terms | Smooth terms in GAM | 
| smooth2random | Convert a smooth to a form suitable for estimating as random effect | 
| smoothCon | Prediction/Construction wrapper functions for GAM smooth terms | 
| smooths | Smooth terms in GAM | 
| soap | Soap film smoother constructer | 
| solve.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| sp.vcov | Extract smoothing parameter estimator covariance matrix from (RE)ML GAM fit | 
| spasm.construct | Experimental sparse smoothers | 
| spasm.smooth | Experimental sparse smoothers | 
| spasm.sp | Experimental sparse smoothers | 
| Spherical.Spline | Splines on the sphere | 
| step.gam | Alternatives to step.gam | 
| summary.gam | Summary for a GAM fit | 
| summary.pdIdnot | Overflow proof pdMat class for multiples of the identity matrix | 
| summary.pdTens | Functions implementing a pdMat class for tensor product smooths | 
| t.scaled | GAM scaled t family for heavy tailed data | 
| t2 | Define alternative tensor product smooths in GAM formulae | 
| te | Define tensor product smooths or tensor product interactions in GAM formulae | 
| tensor.prod.model.matrix | Row Kronecker product/ tensor product smooth construction | 
| tensor.prod.penalties | Row Kronecker product/ tensor product smooth construction | 
| ti | Define tensor product smooths or tensor product interactions in GAM formulae | 
| Tobit | GAM censored normal family for log-normal AFT and Tobit models | 
| totalPenaltySpace | Obtaining (orthogonal) basis for null space and range of the penalty matrix | 
| tprs | Penalized thin plate regression splines in GAMs | 
| trichol | Choleski decomposition of a tri-diagonal matrix | 
| trind.generator | Generates index arrays for upper triangular storage | 
| tw | GAM Tweedie families | 
| Tweedie | GAM Tweedie families | 
| twlss | Tweedie location scale family | 
| uniquecombs | find the unique rows in a matrix | 
| user.defined.smooth | Constructor functions for smooth terms in a GAM | 
| vcov.gam | Extract parameter (estimator) covariance matrix from GAM fit | 
| vis.gam | Visualization of GAM objects | 
| Xbd | Internal functions for discretized model matrix handling | 
| XWXd | Internal functions for discretized model matrix handling | 
| XWyd | Internal functions for discretized model matrix handling | 
| ziP | GAM zero-inflated (hurdle) Poisson regression family | 
| zipll | Zero inflated (hurdle) Poisson location-scale model family | 
| ziplss | Zero inflated (hurdle) Poisson location-scale model family | 
| %.% | Row Kronecker product/ tensor product smooth construction |