Table 1.
Mean precision, recall, and F-score on each empirical data set with each reference genome. Numbers in bold show the best precision, recall, and F-score for each species and reference genome
| Species | Number of samples | Reference genome | Tool | Mean precision | Mean recall | Mean F-score |
|---|---|---|---|---|---|---|
| M. tuberculosis | 17 | H37Rv | BayesTyper | 0.9995 | 0.9217 | 0.9579 |
| GraphTyper | 0.9997 | 0.8938 | 0.9422 | |||
| Minos | 0.9997 | 0.9181 | 0.9559 | |||
| S. aureus | 28 | TW20 | BayesTyper | 0.9984 | 0.8669 | 0.9279 |
| GraphTyper | 0.9990 | 0.7530 | 0.8545 | |||
| Minos | 0.9988 | 0.8786 | 0.9347 | |||
| USA300 | BayesTyper | 0.9993 | 0.8671 | 0.9283 | ||
| GraphTyper | 0.9995 | 0.7506 | 0.8534 | |||
| Minos | 0.9994 | 0.8792 | 0.9353 | |||
| K. pneumoniae | 17 | GCF_000784945.1 | BayesTyper | 0.9990 | 0.9052 | 0.9495 |
| GraphTyper | 0.9999 | 0.9063 | 0.9505 | |||
| Minos | 0.9999 | 0.9143 | 0.9550 | |||
| GCF_001952915.1 | BayesTyper | 0.9995 | 0.8800 | 0.9346 | ||
| GraphTyper | 0.9999 | 0.8788 | 0.9340 | |||
| Minos | 0.9994 | 0.8922 | 0.9417 | |||
| GCF_003073315.1 | BayesTyper | 0.9996 | 0.9267 | 0.9617 | ||
| GraphTyper | 0.9999 | 0.9297 | 0.9634 | |||
| Minos | 0.9998 | 0.9367 | 0.9672 | |||
| GCF_003076555.1 | BayesTyper | 0.9994 | 0.9397 | 0.9686 | ||
| GraphTyper | 0.9999 | 0.9387 | 0.9683 | |||
| Minos | 0.9999 | 0.9438 | 0.9710 | |||
| GCF_011006575.1 | BayesTyper | 0.9995 | 0.9078 | 0.9511 | ||
| GraphTyper | 0.9999 | 0.9075 | 0.9513 | |||
| Minos | 0.9998 | 0.9238 | 0.9602 |