Export absorbance and fluorencence indices and peaks to an excel file

Uses 'eem_coble_peaks2' and 'abs_parm' functions to obtain absorbance and fluoresence indices for an eemlist. Saves data in an excel file.

Usage

get_indices(
  eem_list,
  abs_data,
  meta,
  prjpath,
  doc_norm = "both",
  sampsascol = F,
  waves = NULL
)

eem_list: an object of class eem or eemlist
abs_data: a dataframe containing the absorbance data
meta: the metadata associated with the samples
prjpath: location to save the exported absorbance and fluorescence metrics
doc_norm: either TRUE, FALSE or "both" indicating if peaks should be normalized by DOC concentrations
sampsascol: a logical indicating how results should be oriented, TRUE puts samples as columns, FALSE puts samples as rows
waves: optional, a vector of wavelengths in nm to extract from the absorbance data

Use 'clean_files' function before running this function to ensure file structure is correct for pre-processing.