Table 5.
Scores between Minimap2, Mora, AugPatho2, Kraken2, and Clark when aligning long simulated reads to REF-2
| Algorithm | Species | Genus | ||||
|---|---|---|---|---|---|---|
| F1 | Sensitivity | Precision | F1 | Sensitivity | Precision | |
| Minimap2 | 65.65 | 60.32 | 72.01 | 83.74 | 76.95 | 91.86 |
| Mora | 68.86 | 63.26 | 75.55 | 83.96 | 77.13 | 92.11 |
| AugPatho2 | 67.93 | 63.05 | 73.62 | 84.21 | 78.16 | 91.27 |
| Kraken2 | 73.10 | 68.65 | 78.16 | 85.19 | 80.01 | 91.09 |
| Clark* | 22.97 | 14.83 | 50.98 | 36.10 | 23.30 | 80.12 |
Both Mora and AugPatho2 increase the scores of Minimap2. Mora slightly outperforms AugPatho2 at the species level but has slightly lower F1 and sensitivity scores at the genus level. Clark has an asterisk to signify that had an issue with building the database, which resulted in the low scores