Table 8 Comparison of the 10 different algorithms tested on a sub-panel of 280 strains that are represented by three or more strains in the in-house reference library
Threshold | A | B1 | B2 | C1 | C2 | C3 | D1 | D2 | D3 | D4 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
LS 1.5 | %accepted | 93.57 | 96.07 | 95.36 | 97.14 | 97.14 | 95.36 | 98.21 | 98.21 | 97.14 | 95.71 |
species PPV | 0.93 | 0.94 | 0.92 | 0.94 | 0.94 | 0.91 | 0.95 | 0.93 | 0.92 | 0.90 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 1.6 | %accepted | 90.00 | 92.50 | 92.50 | 93.93 | 93.93 | 93.21 | 95.36 | 95.36 | 94.64 | 93.93 |
species PPV | 0.94 | 0.94 | 0.92 | 0.95 | 0.95 | 0.91 | 0.96 | 0.95 | 0.93 | 0.91 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 1.7 | %accepted | 86.07 | 88.57 | 88.57 | 91.07 | 91.07 | 90.36 | 92.14 | 92.14 | 91.43 | 90.71 |
species PPV | 0.95 | 0.95 | 0.92 | 0.96 | 0.95 | 0.92 | 0.97 | 0.95 | 0.94 | 0.91 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 1.8 | %accepted | 81.07 | 82.86 | 82.86 | 83.93 | 83.93 | 83.21 | 86.07 | 86.07 | 85.71 | 85.36 |
species PPV | 0.96 | 0.96 | 0.93 | 0.97 | 0.97 | 0.93 | 0.97 | 0.96 | 0.95 | 0.92 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 1.9 | %accepted | 69.64 | 75.36 | 75.36 | 76.79 | 76.79 | 76.07 | 79.29 | 79.29 | 78.93 | 78.57 |
species PPV | 0.97 | 0.96 | 0.95 | 0.97 | 0.97 | 0.93 | 0.97 | 0.96 | 0.95 | 0.93 | |
genus PPV | 1.00 | 0.99 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 2.0 | %accepted | 60.00 | 65.00 | 65.00 | 68.57 | 68.57 | 67.86 | 70.36 | 70.36 | 70.00 | 69.64 |
species PPV | 0.98 | 0.97 | 0.95 | 0.97 | 0.97 | 0.94 | 0.97 | 0.96 | 0.95 | 0.94 | |
genus PPV | 1.00 | 0.99 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 2.1 | %accepted | 46.79 | 54.64 | 54.64 | 57.14 | 57.14 | 56.79 | 59.64 | 59.64 | 59.29 | 59.29 |
species PPV | 0.98 | 0.97 | 0.95 | 0.98 | 0.98 | 0.94 | 0.98 | 0.97 | 0.96 | 0.94 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 2.2 | %accepted | 30.36 | 36.79 | 36.79 | 40.00 | 40.00 | 39.64 | 42.50 | 42.50 | 42.14 | 42.14 |
species PPV | 0.99 | 0.97 | 0.95 | 0.97 | 0.97 | 0.95 | 0.98 | 0.97 | 0.97 | 0.96 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |
LS 2.3 | %accepted | 15.71 | 19.29 | 19.29 | 21.43 | 21.43 | 21.43 | 22.50 | 22.50 | 22.50 | 22.50 |
species PPV | 0.97 | 0.98 | 0.96 | 0.97 | 0.97 | 0.95 | 0.97 | 0.95 | 0.95 | 0.95 | |
genus PPV | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |