Spectral Heatmap — spectral.heatmap • AutoSpectral

This function plots the spectral matrix as a heatmap using the specified color palette, and saves it as a JPEG file.

spectral.heatmap(
  spectra,
  title = NULL,
  plot.dir = NULL,
  legend.label = "Intensity",
  color.palette = "viridis",
  save = TRUE,
  show.legend = TRUE
)

Arguments

spectra: Matrix or dataframe containing spectral data format: fluorophores x detectors.
title: Optional prefix for the plot filename.
plot.dir: Optional output directory. Default is NULL, in which case the spectra figure folder will be used.
legend.label: Character string that will appear on the heatmap legend.
color.palette: Optional character string defining the viridis color palette to be used for the fluorophore traces. Default is viridis. Options are the viridis color options: magma, inferno, plasma, viridis, cividis, rocket, mako and turbo.
save: Logical, if TRUE, saves a JPEG file to the plot.dir. Otherwise, the plot will simply be created in the Viewer.
show.legend: Logical. If TRUE, figure legend will be included.

Value

Saves the heatmap plot as a JPEG file in the specified directory.