A method of mass spectrometry is disclosed that includes transforming mass spectral data to produce frequency-domain mass spectral data, modifying the frequency-domain mass spectral data to produce modified frequency-domain mass spectral data by attenuating and/or removing one or more ranges of the frequency-domain mass spectral data that relate to noise associated with peaks of interest in the mass spectral data, and transforming the modified frequency-domain mass spectral data to produce modified mass spectral data.