Table 7.
Rank-based precision, sensitivity and F1-score values for the simulated reads at assembly level
| Reference | Method | Sensitivity (%) | Precision (%) | F1-score (%) |
|---|---|---|---|---|
| RefSeq-OLD | Centrifuge | 22.78 | 64.54 | 33.68 |
| Ganon | 22.32 | 77.95 | 34.70 | |
| Krakenuniq | 22.68 | 69.66 | 34.22 | |
| RefSeq-CG | Centrifuge | 11.82 | 30.77 | 17.08 |
| Ganon | 11.52 | 37.25 | 17.60 | |
| Krakenuniq | 11.67 | 32.45 | 17.17 | |
| RefSeq-ALL | Ganon | 21.56 | 87.89 | 34.62 |
Note: Numbers in bold denote the best results for each reference set. Only ganon indexed the RefSeq-ALL in <24 h, thus, centrifuge, clark and kraken were excluded. Results for all taxonomic levels are in the Supplementary Material S2.