When comparing the results of using a single method, correlation analysis would be the most effective approach with a TPr of 96.1%, an FDr of 60.8%, and a reduction rate of 35.4% (Figure ). Further reduction of the total number of features (i.e., 42.6%), while maintaining high a TPr (i.e., 93.1%) and with an FDr of 57.2%, can be achieved by combining the correlation analysis with the CNL model. Finally, the addition of the third method, t r difference, does not further improve the overall performance. The increase in reduction rate of 1.8% is mainly caused by the additional removal of 1.7% of TP cases. This can also be seen as a positive outcome, since generally determination of the apex t r takes more computational power than obtaining an extracted ion chromatogram for correlation analysis. Therefore, when a time domain is available, the most effective approach for filtering fragment signals consist of a combination of correlation analysis and the CNL model proposed in this paper.