Comet parameter: clip_nterm_methionine

• This parameter controls whether Comet will automatically remove the N-terminal methionine from a sequence entry.
• If set to 0, the sequence is analyzed as-is.
• If set to 1, any sequence with an N-terminal methionine will be analyzed as-is as well as with the methionine removed. This means that any N-terminal modifications will also apply (if appropriate) to the peptide that is generated after the removal of the methionine.
• Valid values are 0 and 1.
• The default value is “0” if this parameter is missing.

Example:

clip_nterm_methionine = 0
clip_nterm_methionine = 1