Comet parameter: remove_precursor_peak

• This parameter controls excluding/removing any precursor signals from the input MS/MS spectrum.
• Valid values are 0, 1, 2, and 3.
• Set this parameter to 0 to not perform any precursor peak removal.
• Set this parameter to 1 to remove all peaks around the precursor m/z.
• Set this parameter to 2 to remove all charge reduced precursor peaks as expected to be present for ETD/ECD spectra.
• Set this parameter to 3 to remove the HPO3 (-80) and H3PO4 (-98) precursor phosphate neutral loss peaks.
• This parameter works in conjuction with “remove_precursor_tolerance” to specify the tolerance around each precuror m/z that will be removed.
• Valid values are 0, 1, and 2.
• The default value is “0” if this parameter is missing.

Example:

remove_precursor_peak = 0
remove_precursor_peak = 1
remove_precursor_peak = 2
remove_precursor_peak = 3