read.spectroflo.expt — read.spectroflo.expt • AutoSpectral

Reads an Experiment (.Expt) file from SpectroFlo and extracts the spillover matrix that was used for the unmixing.

read.spectroflo.expt(
  expt.file,
  output.dir,
  output.filename = "SpectroFlo_spillover_matrix.csv",
  fcs.file = NULL
)

Arguments

expt.file: File name and path to the .Expt file to be read.
output.dir: Directory where the spillover .csv file will be written.
output.filename: Name for the output spillover file. Default is "SpectroFlo_spillover_matrix.csv".
fcs.file: File name and path to an FCS file to be read. Optional, but inclusion of an FCS file will allow for the detector names (channels) to be added to the returned spillover matrix.

Value

Spillover matrix (fluorophores x detectors). Fluorophore names will be automatically extracted from the control .fcs files linked to the .Expt file, with an attempt to clean them up. Detector names (columns) are not extracted.