ggspectra (version 0.3.1)

plot.object_spct: Plot method for object spectra.

Description

This function returns a ggplot object with an annotated plot of an object_spct object.

Usage

# S3 method for object_spct
plot(x, ...,
  w.band = getOption("photobiology.plot.bands", default = list(UVC(),
  UVB(), UVA(), PAR())), range = NULL, plot.qty = "all",
  pc.out = FALSE, label.qty = NULL, span = 61, annotations = NULL,
  time.format = "", tz = "UTC", stacked = TRUE, text.size = 2.5,
  idfactor = NULL, ylim = c(NA, NA), na.rm = TRUE)
# S3 method for object_mspct
plot(x, ..., range = NULL)

Arguments

x

an object_spct object

...

in the case of collections of spectra, additional arguments passed to the plot methods for individual spectra, otherwise currently ignored.

w.band

a single waveband object or a list of waveband objects

range

an R object on which range() returns a vector of length 2, with min annd max wavelengths (nm)

plot.qty

character string, one of "all", "transmittance", "absorbance", "absorptance", or "reflectance".

pc.out

logical, if TRUE use percents instead of fraction of one

label.qty

character string giving the type of summary quantity to use for labels, one of "mean", "total", "contribution", and "relative".

span

a peak is defined as an element in a sequence which is greater than all other elements within a window of width span centered at that element.

annotations

a character vector

time.format

character Format as accepted by strptime.

tz

character Time zone to use for title and/or subtitle.

stacked

logical

text.size

numeric size of text in the plot decorations.

idfactor

character Name of an index column in data holding a factor with each spectrum in a long-form multispectrum object corresponding to a distinct spectrum. If idfactor=NULL the name of the factor is retrieved from metadata or if no metadata found, the default "spct.idx" is tried. If idfactor=NA no aesthetic is mapped to the spectra and the user needs to use 'ggplot2' functions to manually map an aesthetic or use facets for the spectra.

ylim

numeric y axis limits,

na.rm

logical.

Value

a ggplot object.

See Also

Other plot functions: autoplot.generic_spct, plot.calibration_spct, plot.cps_spct, plot.filter_spct, plot.raw_spct, plot.reflector_spct, plot.response_spct, plot.source_spct, plot.waveband

Examples

# NOT RUN {
library(photobiology)
plot(Ler_leaf.spct)

# }