Plot PTW alignments — plot.ptw_list • chromatographR

Plots ptw alignments.

Usage

# S3 method for class 'ptw_list'
plot(
  x,
  what = c("traces", "heatmap"),
  engine = c("base", "ggplot", "plotly"),
  lambdas,
  show_legend = TRUE,
  ...
)

Arguments

x: A ptw_list object created by correct_rt.
what: What type of plot to return. Either "traces" (default) or "heatmap".
engine: What plotting engine to use. One of "base" (default), "ggplot", or "plotly".
lambdas: Wavelengths to plot, from among those used for warping. Defaults to all of them. The heatmap shows only the first.
show_legend: Logical. Whether to include sample legend.
...: Ignored.

Value

A plotly or ggplot object when engine = "plotly" or engine = "ggplot", respectively. No value is returned when engine = "base".

Details

Plots raw and warped chromatograms, one above the other, either as individual traces or as a heatmap, according to the value of what. The plot can be produced using either base R graphics, ggplot2, or plotly, according to the value of the engine argument.

Side effects

If engine == "base", plots are rendered to the active graphics device.

Author

Ethan Bass

Examples

data(Sa_pr)
warp <- correct_rt(chrom_list = Sa_pr, what = "models", lambdas = 210)
plot(warp)