Comet parameter: clear_mz_range

• This parameter is intended for iTRAQ/TMT type data where one might want to remove the reporter ion signals in the MS/MS spectra prior to searching.
• Defines the m/z range to clear out in each MS/MS spectra
• This parameter has two decimal values.
• The first value is the lower mass cutoff and the second value is the high mass cutoff.
• Valid values are two decimal numbers where the first number must be less or equal to the second number.
• All peaks between the two decimal values are cleared out.
• The default value is “0.0 0.0” if this parameter is missing.

Example:

clear_mz_range = 0.0 0.0
clear_mz_range = 112.5 121.5 (iTRAQ 8-plux)
clear_mz_range = 125.5 131.5 (TMT)