Methods for regression for functional data, including function-on-scalar, scalar-on-function, and function-on-function regression. Some of the functions are applicable to image data.

Author | Jeff Goldsmith [aut], Fabian Scheipl [aut], Lei Huang [aut, cre], Julia Wrobel [aut], Jonathan Gellar [aut], Jaroslaw Harezlak [aut], Mathew W. McLean [aut], Bruce Swihart [aut], Luo Xiao [aut], Ciprian Crainiceanu [aut], Philip T. Reiss [aut], Yakuan Chen [ctb], Sonja Greven [ctb], Lan Huo [ctb], Madan Gopal Kundu [ctb], So Young Park [ctb], David L. Miller [ctb], Ana-Maria Staicu [ctb] |

Date of publication | 2016-08-03 10:09:56 |

Maintainer | Lei Huang <huangracer@gmail.com> |

License | GPL (>= 2) |

Version | 0.1-16 |

**af:** Construct an FGAM regression term

**af_old:** Construct an FGAM regression term

**amc:** Additive model with constraints

**bayes_fosr:** Bayesian Function-on-scalar regression

**ccb.fpc:** Corrected confidence bands using functional principal...

**cd4:** Observed CD4 cell counts

**cmdscale_lanczos:** Faster multi-dimensional scaling

**coefboot.pffr:** Simple bootstrap CIs for pffr

**coefficients.pfr:** Extract coefficient functions from a fitted pfr-object

**coef.pffr:** Get estimated coefficients from a pffr fit

**create.prep.func:** Construct a function for preprocessing functional predictors

**DTI:** Diffusion Tensor Imaging: tract profiles and outcomes

**DTI2:** Diffusion Tensor Imaging: more fractional anisotropy profiles...

**expand.call:** Return call with all possible arguments

**fbps:** Sandwich smoother for matrix data

**ff:** Construct a function-on-function regression term

**ffpc:** Construct a PC-based function-on-function regression term

**ffpcplot:** Plot PC-based function-on-function regression terms

**fgam:** Functional Generalized Additive Models

**fosr:** Function-on-scalar regression

**fosr2s:** Two-step function-on-scalar regression

**fosr.perm:** Permutation testing for function-on-scalar regression

**fosr.vs:** Function-on Scalar Regression with variable selection

**fpc:** Construct a FPC regression term

**fpca2s:** Functional principal component analysis by a two-stage method

**fpca.face:** Functional principal component analysis with fast covariance...

**fpca.lfda:** Longitudinal Functional Data Analysis using FPCA

**fpca.sc:** Functional principal components analysis by smoothed...

**fpca.ssvd:** Smoothed FPCA via iterative penalized rank one SVDs.

**fpcr:** Functional principal component regression

**f_sum:** Sum computation 1

**f_sum2:** Sum computation 2

**f_sum4:** Sum computation 2

**f_trace:** Trace computation

**gasoline:** Octane numbers and NIR spectra of gasoline

**getTF:** Get recognized transformation function

**gibbs_cs_fpca:** Cross-sectional FoSR using a Gibbs sampler and FPCA

**gibbs_cs_wish:** Cross-sectional FoSR using a Gibbs sampler and Wishart prior

**gibbs_mult_fpca:** Multilevel FoSR using a Gibbs sampler and FPCA

**gibbs_mult_wish:** Multilevel FoSR using a Gibbs sampler and Wishart prior

**gls_cs:** Cross-sectional FoSR using GLS

**lf:** Construct an FLM regression term

**lf_old:** Construct an FLM regression term

**lf.vd:** Construct a VDFR regression term

**lofocv:** Leave-one-function-out cross-validation

**lpeer:** Longitudinal Functional Models with Structured Penalties

**lpfr:** Longitudinal penalized functional regression

**mfpca.sc:** Multilevel functional principal components analysis by...

**model.matrix.pffr:** Obtain model matrix for a pffr fit

**ols_cs:** Cross-sectional FoSR using GLS

**pco_predict_preprocess:** Make predictions using pco basis terms

**pcre:** pffr-constructor for functional principal component-based...

**peer:** Construct a PEER regression term in a 'pfr' formula

**peer_old:** Functional Models with Structured Penalties

**PEER.Sim:** Simulated longitudinal data with functional predictor and...

**pffr:** Penalized flexible functional regression

**pffr.check:** Some diagnostics for a fitted pffr model

**pffrGLS:** Penalized function-on-function regression with non-i.i.d....

**pffrSim:** Simulate example data for pffr

**pfr:** Penalized Functional Regression

**pfr_old:** Penalized Functional Regression (old version)

**pfr_plot.gam:** Local version of 'plot.gam'

**plot.fosr:** Default plotting of function-on-scalar regression objects

**plot.fosr.vs:** Plot for Function-on Scalar Regression with variable...

**plot.fpcr:** Default plotting for functional principal component...

**plot.lpeer:** Plotting of estimated regression functions obtained through...

**plot.peer:** Plotting of estimated regression functions obtained through...

**plot.pffr:** Plot a pffr fit

**plot.pfr:** Plot a pfr object

**predict.fbps:** Prediction for fast bivarate _P_-spline (fbps)

**predict.fgam:** Prediction from a fitted FGAM model

**predict.fosr.vs:** Prediction for Function-on Scalar Regression with variable...

**Predict.matrix.dt.smooth:** Predict.matrix method for dt basis

**Predict.matrix.fpc.smooth:** mgcv-style constructor for prediction of FPC terms

**Predict.matrix.pcre.random.effect:** mgcv-style constructor for prediction of PC-basis functional...

**Predict.matrix.peer.smooth:** mgcv-style constructor for prediction of PEER terms

**Predict.matrix.pi.smooth:** Predict.matrix method for pi basis

**predict.pffr:** Prediction for penalized function-on-function regression

**predict.pfr:** Prediction from a fitted pfr model

**print.summary.pffr:** Print method for summary of a pffr fit

**pwcv:** Pointwise cross-validation for function-on-scalar regression

**qq.pffr:** QQ plots for pffr model residuals

**quadWeights:** Compute quadrature weights

**re:** Random effects constructor for fgam

**refund-internal:** Internal functions for the refund package

**refund-package:** Regression with Functional Data

**residuals.pffr:** Obtain residuals and fitted values for a pffr models

**rlrt.pfr:** Likelihood Ratio Test and Restricted Likelihood Ratio Test...

**sff:** Construct a smooth function-on-function regression term

**smooth.construct.dt.smooth.spec:** Domain Transformation basis constructor

**smooth.construct.fpc.smooth.spec:** Basis constructor for FPC terms

**smooth.construct.pco.smooth.spec:** Principal coordinate ridge regression

**smooth.construct.pcre.smooth.spec:** mgcv-style constructor for PC-basis functional random effects

**smooth.construct.peer.smooth.spec:** Basis constructor for PEER terms

**smooth.construct.pi.smooth.spec:** Parametric Interaction basis constructor

**smooth.construct.pss.smooth.spec:** P-spline constructor with modified 'shrinkage' penalty

**sofa:** SOFA (Sequential Organ Failure Assessment) Data

**summary.pffr:** Summary for a pffr fit

**summary.pfr:** Summary for a pfr fit

**vb_cs_fpca:** Cross-sectional FoSR using Variational Bayes and FPCA

**vb_cs_wish:** Cross-sectional FoSR using Variational Bayes and Wishart...

**vb_mult_fpca:** Multilevel FoSR using Variational Bayes and FPCA

**vb_mult_wish:** Multilevel FoSR using Variational Bayes and Wishart prior

**vis.fgam:** Visualization of FGAM objects

**vis.pfr:** Visualization of PFR objects

**Xt_siginv_X:** Internal computation function

refund

refund/NAMESPACE

refund/data

refund/data/cd4.RData

refund/data/gasoline.RData

refund/data/PEER.Sim.RData

refund/data/DTI2.RData

refund/data/datalist

refund/data/Q.RData

refund/data/DTI.RData

refund/data/sofa.RData

refund/R

refund/R/fbps.R
refund/R/VB_Mult_Wish.R
refund/R/create.prep.func.R
refund/R/fpcr.R
refund/R/pfr_old.R
refund/R/pffr-utilities.R
refund/R/vis.fgam.R
refund/R/CD4-data.R
refund/R/predict.pfr.R
refund/R/af.R
refund/R/predict.pfr_old.R
refund/R/VB_Mult_FPCA.R
refund/R/rlrt.pfr.R
refund/R/Gibbs_CS_FPCA.R
refund/R/f_trace.R
refund/R/fpcr.setup.R
refund/R/dt_basis.R
refund/R/f_sum.R
refund/R/plot.lpeer.R
refund/R/VB_CS_FPCA.R
refund/R/OLS_CS.R
refund/R/amc.R
refund/R/f_sum4.R
refund/R/pi_basis.R
refund/R/osplinepen2d.R
refund/R/Gibbs_Mult_FPCA.R
refund/R/af_old.R
refund/R/irreg2mat.R
refund/R/DTI2-data.R
refund/R/bayes_fosr.R
refund/R/plot.fosr.vs.R
refund/R/fosr.perm.test.R
refund/R/Omegas.R
refund/R/predict.fosr.vs.R
refund/R/pffr-ffpc.R
refund/R/summary.pfr.R
refund/R/pffr.R
refund/R/lpeer.R
refund/R/peer_old.R
refund/R/pffr-methods.R
refund/R/fpca2s.R
refund/R/plot.fpcr.R
refund/R/fosr.perm.R
refund/R/fpca.ssvd.R
refund/R/fosr.vs.R
refund/R/lf_old.R
refund/R/lofocv.R
refund/R/pffr-pcre.R
refund/R/mfpca.sc.R
refund/R/XtSiginvX.R
refund/R/parse.predict.pfr.R
refund/R/coefficients.pfr.R
refund/R/ccb.fpc.R
refund/R/fosr.R
refund/R/pfr.R
refund/R/pspline.setting.R
refund/R/plot.fosr.perm.R
refund/R/predict.fgam.R
refund/R/GLS_CS.R
refund/R/fpc.R
refund/R/fosr.perm.fit.R
refund/R/lf.R
refund/R/VB_CS_Wish.R
refund/R/postprocess.pfr.R
refund/R/select_knots.R
refund/R/lw.test.R
refund/R/plot.pfr.R
refund/R/PEER.Sim-data.R
refund/R/peer.R
refund/R/pffr-sff.R
refund/R/pffr-ff.R
refund/R/pwcv.R
refund/R/poridge.R
refund/R/Gibbs_Mult_Wish.R
refund/R/pffr-robust.R
refund/R/lf.vd.R
refund/R/quadWeights.R
refund/R/predict.fbps.R
refund/R/Gibbs_CS_Wish.R
refund/R/fosr2s.R
refund/R/plot.fosr.R
refund/R/re.R
refund/R/fpca.lfda.R
refund/R/f_sum2.R
refund/R/fgam.R
refund/R/preprocess.pfr.R
refund/R/gasoline-data.R
refund/R/DTI-data.R
refund/R/lpfr.R
refund/R/vis.pfr.R
refund/R/plot.peer.R
refund/R/fpca.face.R
refund/R/fpca.sc.R
refund/MD5

refund/DESCRIPTION

refund/man

refund/man/smooth.construct.pi.smooth.spec.Rd
refund/man/lpfr.Rd
refund/man/vb_mult_fpca.Rd
refund/man/pwcv.Rd
refund/man/vb_cs_wish.Rd
refund/man/gasoline.Rd
refund/man/plot.pfr.Rd
refund/man/fpca.lfda.Rd
refund/man/amc.Rd
refund/man/ff.Rd
refund/man/lf_old.Rd
refund/man/f_trace.Rd
refund/man/pffrSim.Rd
refund/man/rlrt.pfr.Rd
refund/man/DTI2.Rd
refund/man/f_sum2.Rd
refund/man/Xt_siginv_X.Rd
refund/man/cmdscale_lanczos.Rd
refund/man/pco_predict_preprocess.Rd
refund/man/af.Rd
refund/man/fpcr.Rd
refund/man/mfpca.sc.Rd
refund/man/gibbs_mult_wish.Rd
refund/man/peer_old.Rd
refund/man/gibbs_cs_fpca.Rd
refund/man/lf.vd.Rd
refund/man/fpc.Rd
refund/man/pffr.check.Rd
refund/man/smooth.construct.dt.smooth.spec.Rd
refund/man/sff.Rd
refund/man/quadWeights.Rd
refund/man/Predict.matrix.fpc.smooth.Rd
refund/man/cd4.Rd
refund/man/gibbs_cs_wish.Rd
refund/man/vb_cs_fpca.Rd
refund/man/smooth.construct.pss.smooth.spec.Rd
refund/man/pfr_old.Rd
refund/man/f_sum.Rd
refund/man/smooth.construct.pco.smooth.spec.Rd
refund/man/bayes_fosr.Rd
refund/man/pcre.Rd
refund/man/create.prep.func.Rd
refund/man/expand.call.Rd
refund/man/gls_cs.Rd
refund/man/predict.pffr.Rd
refund/man/Predict.matrix.pcre.random.effect.Rd
refund/man/Predict.matrix.pi.smooth.Rd
refund/man/plot.fosr.vs.Rd
refund/man/plot.fosr.Rd
refund/man/plot.fpcr.Rd
refund/man/pffr.Rd
refund/man/ffpcplot.Rd
refund/man/residuals.pffr.Rd
refund/man/coefboot.pffr.Rd
refund/man/lpeer.Rd
refund/man/PEER.Sim.Rd
refund/man/smooth.construct.pcre.smooth.spec.Rd
refund/man/refund-internal.Rd
refund/man/lofocv.Rd
refund/man/peer.Rd
refund/man/fosr.perm.Rd
refund/man/pffrGLS.Rd
refund/man/fpca.sc.Rd
refund/man/smooth.construct.peer.smooth.spec.Rd
refund/man/predict.fbps.Rd
refund/man/vb_mult_wish.Rd
refund/man/pfr.Rd
refund/man/plot.lpeer.Rd
refund/man/fosr2s.Rd
refund/man/Predict.matrix.dt.smooth.Rd
refund/man/predict.pfr.Rd
refund/man/ffpc.Rd
refund/man/af_old.Rd
refund/man/summary.pfr.Rd
refund/man/fpca2s.Rd
refund/man/vis.pfr.Rd
refund/man/qq.pffr.Rd
refund/man/sofa.Rd
refund/man/re.Rd
refund/man/gibbs_mult_fpca.Rd
refund/man/fosr.vs.Rd
refund/man/coefficients.pfr.Rd
refund/man/fgam.Rd
refund/man/refund-package.Rd
refund/man/fosr.Rd
refund/man/predict.fosr.vs.Rd
refund/man/summary.pffr.Rd
refund/man/plot.peer.Rd
refund/man/vis.fgam.Rd
refund/man/print.summary.pffr.Rd
refund/man/f_sum4.Rd
refund/man/plot.pffr.Rd
refund/man/ols_cs.Rd
refund/man/getTF.Rd
refund/man/model.matrix.pffr.Rd
refund/man/lf.Rd
refund/man/coef.pffr.Rd
refund/man/fpca.face.Rd
refund/man/DTI.Rd
refund/man/ccb.fpc.Rd
refund/man/fbps.Rd
refund/man/predict.fgam.Rd
refund/man/Predict.matrix.peer.smooth.Rd
refund/man/fpca.ssvd.Rd
refund/man/smooth.construct.fpc.smooth.spec.Rd
refund/man/pfr_plot.gam.Rd
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