refund: Regression with Functional Data

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.

AuthorJeff 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 publication2016-08-03 10:09:56
MaintainerLei Huang <huangracer@gmail.com>
LicenseGPL (>= 2)
Version0.1-16

View on CRAN

Man pages

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

Files in this package

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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