R: Functional Data Analysis

# Functional Data Analysis

## Documentation for package ‘fda’ version 6.3.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Code demos. Use demo() to run them.
- Package NEWS

## Help Pages

A B C D E F G H I K L M N O P Q R S T V W Y Z misc

## -- A --

AmpPhaseDecomp | Decomposition for Amplitude and Phase Variation
arithmetic.basisfd | Arithmatic on functional basis objects
arithmetic.fd | Arithmetic on functional data ('fd') objects
as.array3 | Reshape a vector or array to have 3 dimensions.
as.fd | Convert a spline object to class 'fd'
as.fd.fdSmooth | Convert a spline object to class 'fd'
as.fd.function | Convert a spline object to class 'fd'
as.fd.smooth.spline | Convert a spline object to class 'fd'
as.POSIXct1970 | 'as.POXIXct' for number of seconds since the start of 1970.
axesIntervals | Mark Intervals on a Plot Axis
axisIntervals | Mark Intervals on a Plot Axis

## -- B --

basisfd.product | Product of two basisfd objects
bifd | Create a bivariate functional data object
bifdPar | Define a Bivariate Functional Parameter Object
boxplot.fd | Functional Boxplots
boxplot.fdPar | Functional Boxplots
boxplot.fdSmooth | Functional Boxplots
bsplinepen | B-Spline Penalty Matrix
bsplineS | B-spline Basis Function Values

## -- C --

CanadianWeather | Canadian average annual weather cycle
cca.fd | Functional Canonical Correlation Analysis
center.fd | Center Functional Data
checkDim3 | Compare dimensions and dimnames of arrays
checkDims3 | Compare dimensions and dimnames of arrays
checkLogical | Does an argument satisfy required conditions?
checkLogicalInteger | Does an argument satisfy required conditions?
checkNumeric | Does an argument satisfy required conditions?
coef.fd | Extract functional coefficients
coef.fdPar | Extract functional coefficients
coef.fdSmooth | Extract functional coefficients
coefficients.fd | Extract functional coefficients
coefficients.fdPar | Extract functional coefficients
coefficients.fdSmooth | Extract functional coefficients
cor.fd | Correlation matrix from functional data object(s)
covPACE | Estimate of the covariance surface
CRAN | Test if running as CRAN
create.basis | Create Basis Set for Functional Data Analysis
create.bspline.basis | Create a B-spline Basis
create.constant.basis | Create a Constant Basis
create.exponential.basis | Create an Exponential Basis
create.fourier.basis | Create a Fourier Basis
create.monomial.basis | Create a Monomial Basis
create.polygonal.basis | Create a Polygonal Basis
create.power.basis | Create a Power Basis Object
CSTR | Continuously Stirred Tank Reactor
CSTR2 | Continuously Stirred Tank Reactor
CSTR2in | Continuously Stirred Tank Reactor
CSTRfitLS | Continuously Stirred Tank Reactor
CSTRfn | Continuously Stirred Tank Reactor
CSTRres | Continuously Stirred Tank Reactor
CSTRsse | Continuously Stirred Tank Reactor
cumfd | Compute a Cumulative Distribution Functional Data Object
cycleplot.fd | Plot Cycles for a Periodic Bivariate Functional Data Object

## -- D --

daily | Canadian average annual weather cycle
Data2fd | Create smooth functions that fit scatterplot data.
dateAccessories | Numeric and character vectors to facilitate working with dates
day.5 | Numeric and character vectors to facilitate working with dates
dayOfYear | Numeric and character vectors to facilitate working with dates
dayOfYearShifted | Numeric and character vectors to facilitate working with dates
daysPerMonth | Numeric and character vectors to facilitate working with dates
deriv.fd | Compute a Derivative of a Functional Data Object
df.residual.fRegress | Degrees of Freedom for Residuals from a Functional Regression
df2lambda | Convert Degrees of Freedom to a Smoothing Parameter Value
dirs | Get subdirectories

## -- E --

Eigen | Eigenanalysis preserving dimnames
eigen.pda | Stability Analysis for Principle Differential Analysis
eval.basis | Values of Basis Functions or their Derivatives
eval.bifd | Values a Two-argument Functional Data Object
eval.fd | Values of a Functional Data Object
eval.monfd | Values of a Monotone Functional Data Object
eval.penalty | Evaluate a Basis Penalty Matrix
eval.posfd | Evaluate a Positive Functional Data Object
evaldiag.bifd | Evaluate the Diagonal of a Bivariate Functional Data Object
expon | Exponential Basis Function Values
exponentiate.fd | Powers of a functional data ('fd') object
exponpen | Exponential Penalty Matrix

## -- F --

fbplot | Functional Boxplots
fd2list | Convert a univariate functional data object to a list
fda | Functions for statistical analyses of functions
fdlabels | Extract plot labels and names for replicates and variables
fdPar | Define a Functional Parameter Object
fdParcheck | Convert 'fd' or 'basisfd' Objects to 'fdPar' Objects
fitted.fdSmooth | Values of a Functional Data Object
fitted.monfd | Values of a Monotone Functional Data Object
fitted.posfd | Evaluate a Positive Functional Data Object
fourier | Fourier Basis Function Values
fourierpen | Fourier Penalty Matrix
Fperm.fd | Permutation F-test for functional linear regression.
fRegress | Functional Regression Analysis
fRegress.character | Functional Regression Analysis
fRegress.CV | Computes Cross-validated Error Sum of Integrated Squared Errors for a Functional Regression Model
fRegress.double | Functional Regression Analysis
fRegress.fd | Functional Regression Analysis
fRegress.formula | Functional Regression Analysis
fRegress.stderr | Compute Standard errors of Coefficient Functions Estimated by Functional Regression Analysis
Fstat.fd | F-statistic for functional linear regression.

## -- G --

gait | Hip and knee angle while walking
geigen | Generalized eigenanalysis
getbasismatrix | Values of Basis Functions or their Derivatives
getbasispenalty | Evaluate a Roughness Penalty Matrix
getbasisrange | Extract the range from a basis object
growth | Berkeley Growth Study data

## -- H --

handwrit | Cursive handwriting samples
handwritTime | Cursive handwriting samples

## -- I --

infantGrowth | Tibia Length for One Baby
inprod | Inner products of Functional Data Objects.
inprod.bspline | Compute Inner Products B-spline Expansions.
int2Lfd | Convert Integer to Linear Differential Operator
intensity.fd | Intensity Function for Point Process
is.basis | Confirm Object is Class "Basisfd"
is.eqbasis | Confirm that two objects of class "Basisfd" are identical
is.fd | Confirm Object has Class "fd"
is.fdPar | Confirm Object has Class "fdPar"
is.fdSmooth | Confirm Object has Class "fdSmooth"
is.Lfd | Confirm Object has Class "Lfd"

## -- K --

knots.basisfd | Extract the knots from a function basis or data object
knots.fd | Extract the knots from a function basis or data object
knots.fdSmooth | Extract the knots from a function basis or data object

## -- L --

lambda2df | Convert Smoothing Parameter to Degrees of Freedom
lambda2gcv | Compute GCV Criterion
landmarkreg | Landmark Registration of Functional Observations with Differing Ranges
Lfd | Define a Linear Differential Operator Object
lines.fd | Add Lines from Functional Data to a Plot
lines.fdSmooth | Add Lines from Functional Data to a Plot
linmod | Fit Fully Functional Linear Model
lip | Lip motion
lipmarks | Lip motion
liptime | Lip motion
lnsrch | Search along a line for a minimum within an optimisation algorithm.

## -- M --

matplot | Plot Columns of Matrices
matplot.Date | Plot Columns of Matrices
matplot.default | Plot Columns of Matrices
matplot.POSIXct | Plot Columns of Matrices
mean.fd | Mean of Functional Data
melanoma | melanoma 1936-1972
minus.fd | Arithmetic on functional data ('fd') objects
monfn | Evaluate the a monotone function
mongrad | Evaluate the gradient of a monotone function
monhess | Evaluate the Hessian matrix of a monotone function
monomial | Evaluate Monomial Basis
monomialpen | Evaluate Monomial Roughness Penalty Matrix
monthAccessories | Numeric and character vectors to facilitate working with dates
monthBegin.5 | Numeric and character vectors to facilitate working with dates
monthEnd | Numeric and character vectors to facilitate working with dates
monthEnd.5 | Numeric and character vectors to facilitate working with dates
monthLetters | Numeric and character vectors to facilitate working with dates
monthMid | Numeric and character vectors to facilitate working with dates
MontrealTemp | Montreal Daily Temperature

## -- N --

nondurables | Nondurable goods index
norder | Order of a B-spline
norder.basisfd | Order of a B-spline
norder.bspline | Order of a B-spline
norder.default | Order of a B-spline
norder.fd | Order of a B-spline

## -- O --

objAndNames | Add names to an object
odesolv | Numerical Solution mth Order Differential Equation System

## -- P --

pca.fd | Functional Principal Components Analysis
pcaPACE | Estimate the functional principal components
pda.fd | Principal Differential Analysis
pda.overlay | Stability Analysis for Principle Differential Analysis
phaseplanePlot | Phase-plane plot
pinch | pinch force data
pinchraw | pinch force data
pinchtime | pinch force data
plot.basisfd | Plot a Basis Object
plot.cca.fd | Plot Functional Canonical Correlation Weight Functions
plot.fd | Plot a Functional Data Object
plot.fdPar | Plot a Functional Data Object
plot.fdSmooth | Plot a Functional Data Object
plot.Lfd | Plot a Linear Differential Operator Object
plot.pca.fd | Plot Functional Principal Components
plot.pda.fd | Plot Principle Differential Analysis Components
plotbeta | Plot a functional parameter object with confidence limits
plotfit.fd | Plot a Functional Data Object With Data
plotfit.fdSmooth | Plot a Functional Data Object With Data
plotscores | Plot Principal Component Scores
plus.fd | Arithmetic on functional data ('fd') objects
polintmat | Polynomial extrapolation for a converging sequence of one or more values
polyg | Polygonal Basis Function Values
polygpen | Polygonal Penalty Matrix
powerbasis | Power Basis Function Values
powerpen | Power Penalty Matrix
ppBspline | Convert a B-spline function to piece-wise polynomial form
predict.basisfd | Values of Basis Functions or their Derivatives
predict.fd | Values of a Functional Data Object
predict.fdPar | Values of a Functional Data Object
predict.fdSmooth | Values of a Functional Data Object
predict.fRegress | Predict method for Functional Regression
predict.monfd | Values of a Monotone Functional Data Object
predict.posfd | Evaluate a Positive Functional Data Object
project.basis | Approximate Functional Data Using a Basis

## -- Q --

quadset | Quadrature points and weights for Simpson's rule

## -- R --

reconsCurves | Reconstruct data curves using functional principal components
refinery | Reflux and tray level in a refinery
ReginaPrecip | Regina Daily Precipitation
register.fd | Register Functional Data Objects Using a Continuous Criterion
register.newfd | Register Functional Data Objects with Pre-Computed Warping Functions
residuals.fdSmooth | Values of a Functional Data Object
residuals.monfd | Values of a Monotone Functional Data Object
residuals.posfd | Evaluate a Positive Functional Data Object

## -- S --

scoresPACE | Estimates of functional Principal Component scores through PACE
sd.fd | Standard Deviation of Functional Data
seabird | Sea Bird Counts
smooth.basis | Construct a functional data object by smoothing data using a roughness penalty
smooth.basis.sparse | Construct a functional data object by smoothing data using a roughness penalty
smooth.basis1 | Construct a functional data object by smoothing data using a roughness penalty
smooth.basis2 | Construct a functional data object by smoothing data using a roughness penalty
smooth.basis3 | Construct a functional data object by smoothing data using a roughness penalty
smooth.basisPar | Smooth Data Using a Directly Specified Roughness Penalty
smooth.bibasis | Smooth a discrete surface over a rectangular lattice
smooth.fd | Smooth a Functional Data Object Using an Indirectly Specified Roughness Penalty
smooth.fdPar | Smooth a functional data object using a directly specified roughness penalty
smooth.monotone | Monotone Smoothing of Data
smooth.morph | Estimates a Smooth Warping Function Mapping an Interval into Another
smooth.pos | Smooth Data with a Positive Function
smooth.sparse.mean | Smooth the mean function of sparse data
sparse.list | Creates a list of sparse data from a matrix
sparse.mat | Creates a matrix of sparse data with NAs out of a list
std.fd | Standard Deviation of Functional Data
stddev.fd | Standard Deviation of Functional Data
stdev.fd | Standard Deviation of Functional Data
stepchk | Check a step size value for being within parameter limits.
stepit | Compute a new step size for a linear search within an optimization algorithm.
sum.fd | Sum of Functional Data
summary.basisfd | Summarize a Functional Data Object
summary.bifd | Summarize a Bivariate Functional Data Object
summary.fd | Summarize a Functional Data Object
summary.fdPar | Summarize a Functional Parameter Object
summary.Lfd | Summarize a Linear Differential Operator Object
symsolve | solve(A, B) where A is symmetric

## -- T --

times.fd | Arithmetic on functional data ('fd') objects
tperm.fd | Permutation t-test for two groups of functional data objects.
trapzmat | Approximate the functional inner product of two functional data objects using the trapezpoidal rule over a fine mesh of value.

## -- V --

var.fd | Variance, Covariance, and Correlation Surfaces for Functional Data Object(s)
varmx | Rotate a Matrix of Component Loadings using the VARIMAX Criterion
varmx.cca.fd | Rotation of Functional Canonical Components with VARIMAX
varmx.pca.fd | Rotation of Functional Principal Components with VARIMAX Criterion
vec2Lfd | Make a Linear Differential Operator Object from a Vector

## -- W --

weeks | Numeric and character vectors to facilitate working with dates
wtcheck | Check a vector of weights

## -- Y --

ycheck | Check Data Arrays for Smoothing Functions

## -- Z --

zerobasis | Orthonormal Matrix with Columns Summing to Zero
zerofind | Does the range of the input contain 0?

## -- misc --

*.basisfd | Product of two basisfd objects
*.fd | Arithmetic on functional data ('fd') objects
+.fd | Arithmetic on functional data ('fd') objects
-.fd | Arithmetic on functional data ('fd') objects
==.basisfd | Arithmatic on functional basis objects
^.fd | Powers of a functional data ('fd') object