plotEEMs: plotEEMs

In USGS-R/USGSHydroOpt: Tools for optical data analysis

plotEEMs

Description

Plot contour graph of excitation emmission spectra with defined peaks indicated on the graph

Usage

plotEEMs(mat, Ex, Em, nlevels, Peaks, peakCol, peakEx, peakEm, mainTitle,
  titleSize = 0.9, ...)

Arguments

mat	2-D matrix of excitation-emmission spectra
Ex	numeric excitation wavelengths
Em	numeric emmission wavelengths
nlevels	numeric color levels for contour graph. 50 is commonly used for a value here.
Peaks	dataframe with peaks to be indicated on the graph
peakCol	character column name in Peaks which contains the abbreviation for that peak
peakEx	character column name in Peaks to use for excitation wavelengths
peakEm	character column name in Peaks to use for emmission wavelengths
mainTitle	Plot title
titleSize	font size for plot title
...	additional plotting parameters as needed. xlim and ylim are commonly used here.

Value

Excitation-Emission (EEMs) Plot with the important peaks identified

Examples

GRnum <- "gr13307"
mat <- a[,,GRnum]
Ex <- as.numeric(names(a[,1,1]))
Em <- as.numeric(names(a[1,,1]))
nlevels <- 50
Peaks <- ex_ems
peakCol <- "Peak"
peakEx <- "ExCA"
peakEm <- "EmCA"
titleSize <- 1.1
mainTitle <- "Example EEMs Plot"
exampleEEMs <- plotEEMs(mat=mat,Ex=Ex,Em=Em,nlevels=nlevels,Peaks=Peaks,peakCol=peakCol,
peakEx=peakEx,peakEm=peakEm,mainTitle=mainTitle,titleSize=titleSize)

USGS-R/USGSHydroOpt documentation built on Oct. 18, 2022, 9:50 a.m.