Table 2. Resistance determinants found by the four methods for P. aeruginosa levofloxacin resistance.
| Legend | resistome-based | DBGWAS | pyseer | HAWK |
| Time (mem) | 37m (7.2 GB) | 21m (3.2 GB) | 24h22m (14.5 GB) | 39m (4.2 GB) |
| Nb reported | 2 variants | 5 subgraphs | 224 k-mers | 8 reassembled k-mers |
| Known positive |
gyrA (2.11 × 10−22) | gyrA (7.21 × 10−29) | gyrA (1.97 × 10−17) | gyrA (2.82 × 10−14) |
| parC (1.83 × 10−5) | parC (5.68 × 10−6) | parC (5.68 × 10−9) | ||
| Unknown | HK/RR (1.87 × 10−2) | tnp (1.66 × 10−14) | ||
| tnp | NC near tnp | |||
| topA |
This table presents the annotation of the features identified by the tested methods with default parameters. The total number of reported features, as well as the execution time and memory load (in Gigabytes) are given in the header. For k-mer-based methods, annotations were retrieved by mapping unitig/k-mer sequences to the resistance and Uniprot databases (see Interpretation of significant unitigs (step 3) subsection of the Methods section), and completed when needed by Blast on NCBI Nucleotide database. Green cells correspond to resistance determinants already described in the literature. Grey cells represent unknown determinants. Within each category, annotations are ordered by increasing minimum p/q-values. p/q-values are reported only for the most significant annotations. For each method, the annotation with the lowest p/q-values is underlined. ‘NC’ means noncoding region and ‘tnp’ transposase.