spectrum, minimum fragment mz

# spectrum, minimum fragment mz ## Syntax This value is a positive floating point number, Mfmin. ## Notes If no value is specified or it is uninterpretable, the default value is Mfmin = 200 No error message is generated by inappropriate values. ## Description The fragment ion mass spectra produced by peptides contain peaks that are sequence-specific and those that are caused by individual amino acid residues. The peaks caused by these individual amino acid residues tend to be relatively small (m/z < 200) and they do not affect the outcome of a search. However, these peaks can be very intense, sometimes dwarfing the sequence-specific peaks used by TANDEM to discover appropriate model peptide sequences. The value of Mfmin is used to remove these intense (but not very useful) peaks, prior to normalization. Any peak that does not meet the condition: m/z > Mfmin is rejected. see also: spectrum, dynamic range | spectrum, minimum parent m+h spectrum, minimum peaks | spectrum, use noise suppression X! TANDEM API description project