Get Fluorophore Spectra — get.fluorophore.spectra • AutoSpectral

This function retrieves the fluorophore spectra for flow cytometry data, optionally using cleaned expression data. It also plots and saves the spectra, and performs cosine similarity QC for controls.

get.fluorophore.spectra(
  flow.control,
  asp,
  use.clean.expr = TRUE,
  af.spectra = NULL,
  title = NULL
)

Arguments

flow.control: A list containing flow cytometry control data.
asp: The AutoSpectral parameter list. Prepare using get.autospectral.param
use.clean.expr: Logical indicating whether to use cleaned expression data, default is TRUE
af.spectra: Optional autofluorescence spectra to include.
title: Optional prefix for plot titles, default is NULL, which gives "Initial" when use.clean.expr is FALSE and "Clean" when use.clean.expr is TRUE.

Value

A matrix with the fluorophore spectra.