Abstract
The performance of six similarity indices in combination with five encoding modes of mass spectra files of steroids, using forward searching, was tested. The evaluation was based on a number of criteria that compare the effectiveness, the resolution and the ability to retrieve structurally similar compounds. The results of searching are presented and discussed. It seems that the criteria used can differentiate sufficiently the performance of searching systems. In the particular steroid files used, it appears that search systems that use the Euclidean distance as a similarity index give a better overall performance, especially when combined with the abbreviated modes two masses every fourteen and sixteen most significant masses.
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