Large-scale tandem mass spectrum clustering using fast nearest neighbor searching — Clustering output

Spectrum clustering results for falcon, MaRaCluster, MS-Cluster, msCRUSH, and spectra-cluster on the human draft proteome dataset (PXD000561). The hyperparameters used are the following: - falcon: eps 0.05, 0.10, 0.15, 0.20, 0.25 - MaRaCluster: pvalThreshold/clusterThresholds -3.0, -5.0, -10.0, -15.0, -20.0, -25.0, -30.0 - MS-Cluster: mixture-prob 0.00001, 0.0001, 0.001, 0.005, 0.01, 0.05, 0.1; num-rounds 3 - msCRUSH: iteration 100; hash 15; similarity 0.3, 0.4, 0.5, 0.6, 0.7, 0.8 - spectra-cluster: threshold_start 1.0; threshold_end 0.99999, 0.9999, 0.99, 0.99, 0.95, 0.9, 0.8; rounds