Plot EEMs plots as contour plots
ggeem2.RdCreates a pretty EEMs contour plot with the ability to manually set the intensity scale or use an automated one based on the minimum and maximum of the EEM. Option to add Coble peak labels to the plot (based off peaks from Coble et al. 2014).
Usage
ggeem2(
eem,
manualscale = F,
manualmax = 1.5,
manualmin = 0,
nbins = 8,
label_peaks = F,
prec = 2,
palette = "parula",
z_unit = "RU"
)Arguments
- eem
an object of class eem or eemlist, the data you want to plot
- manualscale
a logical indicating if you want to specify the minimum and maximum of the intensity scale manually, good for comparisons across samples
- manualmax
maximum value for intensity scale
- manualmin
minimum value used for intensity scale
- nbins
the number of bins (and colors) used in the contour plot, maximum of 24
- label_peaks
a logical indicating if you want the main coble peaks annotated on the plot
- prec
an integer for the number of significant figures used for binning the intensity
- palette
a character with the color palette to use. Currently 'parula', 'ocean.haline', 'cubicl', and 'kovesi.rainbow' from the 'pals' package are supported (and custom 'katie_pal')
- z_unit
either "RU" or "DOC", use "RU" for raman normalized data and "DOC" for raman and DOC normalized data