. Author manuscript; available in PMC: 2019 Oct 5.

Published in final edited form as: J Proteome Res. 2018 Sep 13;17(10):3463–3474. doi: 10.1021/acs.jproteome.8b00359

Table 2:

Runtime and identification rates for ANN-SoLo, SpectraST, and MSFragger on the HEK293 data set. The runtime is reported in minutes and represents the average runtime over all 24 raw files. The identification rate is reported in terms of the number of accepted SSMs at 1 % FDR and the number of corresponding unique peptides and is reported for the entire 24-run data set.

Search engine	Time (min)	# SSMs	# Peptides
Standard search
MSFragger	0.7	344 998	104 672
SpectraST	5.2	369 079	102 077
ANN-SoLo	24.0	352 938	105 870
Open search
MSFragger	34.7	526 027	126 364
SpectraST	1276.7	473 729	112 375
ANN-SoLo	108.5	647 469	153 605