plot.pca.fd: Plot Functional Principal Components

In fda: Functional Data Analysis

Description

Display the types of variation across a sample of functions. Label with the eigenvalues that indicate the relative importance of each mode of variation.

Usage

#plot.pca.fd(x, nx = 128, pointplot = TRUE, harm = 0,
#                        expand = 0, cycle = FALSE, ...)

#NOTE:  The following is required by CRAN rules that
# function names like "as.numeric" must follow the documentation
# standards for S3 generics, even when they are not.
# Please ignore the following line:
## S3 method for class 'pca.fd'
plot(x, nx = 128, pointplot = TRUE, harm = 0,
                        expand = 0, cycle = FALSE, ...)

Arguments

x	a functional data object.
nx	Number of points to plot or vector (if length > 1) to use as evalarg in evaluating and plotting the functional principal components.
pointplot	logical: If TRUE, the harmonics / principal components are plotted as '+' and '-'. Otherwise lines are used.
harm	Harmonics / principal components to plot. If 0, plot all. If length(harm) > sum(par("mfrow")), the user advised, "Waiting to confirm page change..." and / or 'Click or hit ENTER for next page' for each page after the first.
expand	nonnegative real: If expand == 0 then effect of +/- 2 standard deviations of each pc are given otherwise the factor expand is used.
cycle	logical: If cycle=TRUE and there are 2 variables then a cycle plot will be drawn If the number of variables is anything else, cycle will be ignored.
...	other arguments for 'plot'.

Details

Produces one plot for each principal component / harmonic to be plotted.

Value

invisible(NULL)

See Also

cca.fd, pda.fd plot.pca.fd

Examples

#  carry out a PCA of temperature
#  penalize harmonic acceleration, use varimax rotation

daybasis65 <- create.fourier.basis(c(0, 365), nbasis=65, period=365)

harmaccelLfd <- vec2Lfd(c(0,(2*pi/365)^2,0), c(0, 365))
harmfdPar     <- fdPar(daybasis65, harmaccelLfd, lambda=1e5)
daytempfd <- smooth.basis(day.5, CanadianWeather$dailyAv[,,"Temperature.C"],
                     daybasis65, fdnames=list("Day", "Station", "Deg C"))$fd

daytemppcaobj <- pca.fd(daytempfd, nharm=4, harmfdPar)
#  plot harmonics, asking before each new page after the first:
plot.pca.fd(daytemppcaobj)

# plot 4 on 1 page
op <- par(mfrow=c(2,2))
plot.pca.fd(daytemppcaobj, cex.main=0.9)
par(op)

fda documentation built on May 2, 2019, 5:12 p.m.