Plot fitted peak shapes.

Visually assess integration accuracy by plotting fitted peaks over trace.

Usage

# S3 method for peak_list
plot(
  x,
  ...,
  chrom_list,
  idx = 1,
  lambda = NULL,
  points = FALSE,
  ticks = FALSE,
  a = 0.5,
  color = NULL,
  cex.points = 0.5,
  numbers = FALSE,
  cex.font = 0.5,
  y.offset = 25,
  plot_purity = FALSE,
  res,
  index = NULL
)

Arguments

x

A peak_list object. Output from the get_peaks function.

...

Additional arguments to main plot function.

chrom_list

List of chromatograms (retention time x wavelength matrices)

idx

Index or name of chromatogram to be plotted.

lambda

Wavelength for plotting.

points

Logical. If TRUE, plot peak maxima. Defaults to FALSE.

ticks

Logical. If TRUE, mark beginning and end of each peak. Defaults to FALSE.

a

Alpha parameter controlling the transparency of fitted shapes.

color

The color of the fitted shapes.

cex.points

Size of points. Defaults to 0.5

numbers

Whether to number peaks. Defaults to FALSE.

cex.font

Font size if peaks are numbered. Defaults to 0.5.

y.offset

Y offset for peak numbers. Defaults to 25.

plot_purity

Whether to add visualization of peak purity.

res

time resolution for peak fitting

index

This argument is deprecated. Please use idx instead.

Value

No return value, called for side effects.

Side effects

Plots a chromatographic trace from the specified chromatogram (chr) at the specified wavelength (lambda) with fitted peak shapes from the provided peak_list drawn underneath the curve.

See also

get_peaks

Author

Ethan Bass