Table 2.
Optimal thresholds and best F-measures obtained by clustering different clean barcode datasets.
| Dataset | Abbreviation | Optimal threshold | Best F-measure | Number of species | Number of strains |
|---|---|---|---|---|---|
| Manually validated ITS | M1 | 99.21 % | 82.73 % | 1 387 | 5 182 |
| Manually validated LSU | M2 | 99.51 % | 80.94 % | 1 380 | 5 011 |
| Manually validated having both ITS and LSU | M3 | 99.11 % | 84.47 % | 1 375 | 4 995 |
| Clean CBS type ITS | CT1 | 99.21 % | 92.33 % | 1 410 | 1 958 |
| Clean, manually validated ITS | CM1 | 98.11 % | 90.9 % | 1 318 | 4 022 |
| Clean CBS ITS | CC1 | 98.41 % | 90.67 % | 1 510 | 4 968 |
| Clean CBS Ascomycetous ITS | CCA1 | 98.31 % | 90.76 % | 981 | 3 029 |
| Clean CBS Basidiomycetous ITS | CCB1 | 98.61 % | 89.31 % | 5 34 | 2 097 |
| Clean CBS+GB ITS | CCN1 | 98.31 % | 88 % | 1 678 | 6 892 |
| Clean CBS type LSU | CT2 | 99.61 % | 94.31 % | 1 415 | 1 963 |
| Clean, manually validated LSU | CM2 | 99.51 % | 90.58 % | 1 285 | 3 835 |
| Clean CBS LSU | CC2 | 99.51 % | 91.48 % | 1 492 | 5 040 |
| Clean CBS Ascomycetous LSU | CCA2 | 99.51 % | 90.59 % | 959 | 3 101 |
| Clean CBS Basidiomycetous LSU | CCB2 | 99.41 % | 92.32 % | 515 | 1 929 |
| Clean CBS+GB LSU | CCN2 | 99.41 % | 91.49 % | 1 627 | 7 483 |