hs_phenoRam: Calculate the phenotypic heterogeneity indices for each cell
In CMET-UGent/MicroRaman: Phenotyping of microbial Raman spectroscopy data

Calculate the phenotypic heterogeneity indices for each cell

hs_phenoRam(
  hs.x,
  preprocess = FALSE,
  smooth = FALSE,
  align = FALSE,
  path = NULL,
  trim.range = c(400, 1800),
  pattern = ".spc",
  niter = 10,
  return_spectra = TRUE,
  peak_detection = FALSE,
  peak_window = 20,
  peak_method = c("MAD")
)

`hs.x`	HyperSpec object
`preprocess`	Preprocess? TRUE/FALSE. Defaults to FALSE.
`smooth`	Option for preprocessing. Defaults to FALSE.
`align`	Align option for preprocessing. Defaults to FALSE.
`path`	path where Raman data is located, only useful if preprocess==TRUE
`trim.range`	Wavenumber range to trim from raw spectra. Only used if preprocess==TRUE
`pattern`	(POSIX) regular expression used to select files (defaults to ".spc"), only used if preprocess==TRUE Options are "MAD" and "SuperSmoother"
`niter`	Number of iteration Option for preprocessing. Defaults to FALSE.
`return_spectra`	Should hyperSpec object be returned as final object? Defaults to TRUE.
`peak_detection`	Should peak detection be used instead of raw spectra for Hill calculations? Defaults to FALSE
`peak_window`	Peak windows size for a peak to be considered a signal. Defaults to 20.
`peak_method`	Which peak detection method should be used (requires peak_detection == TRUE).

# Short example
data("hs_example")

# Preprocess
hs_example <- hs_preprocess(hs_example)

# Calculate metrics
hs_phenoRam(hs.x = hs_example, preprocess = TRUE, peak_detection = TRUE)