Table 3.
Results of AF4-targeted mode and Manta on cfDNA titration data for identified fusion events
| Samples (titration) | readpairs (millions) | Coverage | AF4 |
Manta |
||||
|---|---|---|---|---|---|---|---|---|
| TP | FP | FN | TP | FP | FN | |||
| T1 (0.001) | 1000.9 | 78 004 | 1 | 13 | 1 | 1 | 3774 | 1 |
| T2 (0.002) | 938.8 | 73 165 | 1 | 11 | 1 | 0 | 2884 | 2 |
| T4 (0.004) | 1141.2 | 88 939 | 2 | 16 | 0 | 2 | 2723 | 0 |
| T7 (0.006) | 998.1 | 77 786 | 2 | 16 | 0 | 1 | 2353 | 1 |
| T10 (0.008) | 951.4 | 74 147 | 2 | 15 | 0 | 2 | 2455 | 0 |
| T13 (0.01) | 1033.2 | 80 522 | 2 | 22 | 0 | 2 | 2832 | 0 |
| T14 (0.01) | 1014.2 | 79 041 | 2 | 17 | 0 | 2 | 3108 | 0 |
Note: The coverage is calculated by the formula #readpairs (millions) × 166/2.13, where 2.13 (million bp) is the panel size and 166 (bp) is used as the average fragment length. Some titrations have two to three replicates as shown in the first column.