Table 3 Accuracy of different methods for simulated reads with 12× coverage on chromosomes 21 and 22
From: SVNN: an efficient PacBio-specific pipeline for structural variations calling using neural networks
Method | DEL recall (%) | INS recall (%) | INV recall (%) | DUP recall (%) | TRA recall (%) | Overall recall (%) | FDR (%) |
|---|---|---|---|---|---|---|---|
Baseline method | 63.3 | 37.1 | 92 | 64 | 50 | 57.5 | 3 |
NGMLR-Sniffles | 62.6 | 10.2 | 88 | 67 | 63 | 54.25 | 3.4 |
Most sensitive method | 85.9 | 47.8 | 95 | 80 | 76.5 | 75.1 | 6.4 |
SVNN | 84.1 | 46.2 | 95 | 77 | 76.5 | 73.8 | 4.6 |