Comet parameter: show_fragment_ions

• This parameter affects .out files only e.g. when output_outfiles set to 1. This parameter controls whether or not the theoretical fragment ion masses for the top peptide hit are calculated and dislayed at the end of an .out file.
• Valid values are 0 and 1.
• The default value is “0” if this parameter is missing.

Example:

show_fragment_ions = 0
show_fragment_ions = 1