Table 1.

Tabular summary of the number of spectra identified at the 1% FDR for the three data sets using seven search engines coordinated by PepArML. Columns denote the scoring algorithm employed; rows denote the data set being evaluated. The performance rank for the given scoring system for the given data set is noted parenthetically.

	Peppy	k-Score	Mascot	MSGF+	OMSSA	s-Score	Tandem
S17	77 (1)	49 (4)	51 (3a)	65 (2)	40 (6)	43 (5)	51 (3b)
CPTAC1	334 (2)	143 (7)	269 (4)	433 (1)	217 (5)	174 (6)	270 (3)
CPTAC2	461 (1)	217 (5)	109 (7)	448 (2)	134 (6)	230 (4)	296 (3)