Datasets

Database Size Query Size

InsPecT

Lutefisk

PepNovo

PEAKS
(de novo)

PEAKS
(DB search)

Our algorithm

PeptideAtlas 9,421 44

0.801/0.389

0.149/0.057

0.275/0.128

0.239/0.247

0.486/0.460

0.521 /0.457

OPD 494,049 202

0.580/0.542

0.101/0.006

0.232/0.186

0.113/0.254

0.520/0.554

0.582 / 0.603

ISB 1,248,212 995

0.584/0.621

0.011/0.022

0.548/0.561

0.521/0.552

0.562/0.594

0.594 / 0.695

Table 3: Comparison of different algorithms on the accuracies of peptide identification. In each column, the “Precision/Recall” values are listed.