plot-methods {hyperSpec}

Plotting hyperSpec Objects

Description

Plotting hyperSpec objects. The plot method for hyperSpec objects is a switchyard to plotspc, plotmap, and plotc.

Usage

## S4 method for signature 'hyperSpec,missing'
plot(x, y, ...)

## S4 method for signature 'hyperSpec,character'
plot(x, y, ...)

Arguments

x

the hyperSpec object

y

selects what plot should be produced

...

arguments passed to the respective plot function

Details

It also supplies some convenient abbrevations for much used plots.

If y is missing, plot behaves like plot (x, y = "spc").

Supported values for y are:

"spc"

calls plotspc to produce a spectra plot.

"spcmeansd"

plots mean spectrum +/- one standard deviation

"spcprctile"

plots 16th, 50th, and 84th percentile spectre. If the distributions of the intensities at all wavelengths were normal, this would correspond to "spcmeansd". However, this is frequently not the case. Then "spcprctile" gives a better impression of the spectral data set.

"spcprctl5"

like "spcprctile", but additionally the 5th and 95th percentile spectra are plotted.

"map"

calls plotmap to produce a map plot.

"voronoi"

calls plotvoronoi to produce a Voronoi plot (tesselated plot, like "map" for hyperSpec objects with uneven/non-rectangular grid).

"mat"

calls plotmat to produce a plot of the spectra matrix (not to be confused with matplot).

"c"

calls plotc to produce a calibration (or time series, depth-profile, or the like)

"ts"

plots a time series: abbrevation for plotc (x, use.c = "t")

"depth"

plots a depth profile: abbrevation for plotc (x, use.c = "z")

Author(s)

C. Beleites

See Also

plotspc for spectra plots (intensity over wavelength),

plotmap for plotting maps, i.e. color coded summary value on two (usually spatial) dimensions.

plotc

plot

Examples

plot (flu)

plot (flu, "c")

plot (laser, "ts")

spc <- apply (chondro, 2, quantile, probs = 0.05)
spc <- sweep (chondro, 2, spc, "-")
plot (spc, "spcprctl5")
plot (spc, "spcprctile")
plot (spc, "spcmeansd")