Comet parameter: override_charge

• This parameter specifies whether or not to override existing precursor charge state information when present in the files with the charge range specified by the “precursor_charge” parameter.
• Valid values are 0, 1, 2, and 3:
  • 0 = keep any known precursor charge state values in the input files
  • 1 = ignore known precursor charge state values in the input files and instead use the charge state range specified by the “precursor_charge” parameter.
  • 2 = only search precursor charge state values that are within the range specified by the “precursor_charge” parameter.
  • 3 = keep any known precursor charge state values. For unknown charge states, search as singly charged if there is no signal above the precursor m/z or use the “precursor_charge” range otherwise

Example:

override_charge = 0
override_charge = 1
override_charge = 2
override_charge = 3