oktoberfest.pl.plot_mirror_spectrum

oktoberfest.pl.plot_mirror_spectrum(spec_pred, mzml, raw_file, scan_number, config, prosit_df, target_df, decoy_df, pdf)

Generate a mirror plot comparing an experimental and predicted MS/MS spectrum.

Parameters:

  • spec_pred (Spectra) – Spectra object containing predicted MS/MS spectra

  • mzml (DataFrame) – ThermoRaw object containing experimental MS/MS spectra from an mzML file

  • raw_file (str) – The name of the raw file being processed

  • scan_number (int) – The scan number of the spectrum to be plotted

  • config (Config) – the configuration object

  • prosit_df (DataFrame) – mokapot / percolator input tab for rescoring with peptide property prediction

  • target_df (DataFrame) – mokapot / percolator target output for rescoring with peptide property prediction on the psm level

  • decoy_df (DataFrame) – mokapot / percolator decoy output for rescoring with peptide property prediction on the psm level

  • pdf (PdfPages) – PDF file object for saving mirror plots