I have added support for variable modifications to the Proteomics.MassCalc class. This will allow calculations of any hypothetical peptides that might arise from a modification. For example if a peptide has two Methionines and the user tells it to look for the Met-Ox for as well as the Native Met the getVariableMasses will return the mass of the non-modified peptide, the peptide with one Met-Ox and the peptide with two Met-Ox.
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