From: SVNN: an efficient PacBio-specific pipeline for structural variations calling using neural networks
 | Time (s) |  | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
Method | Minimap2 | NGMLR | Find reads in fastQ | Unify outputs | SAM to BAM | Sniffles | SVIM | Remove redundancy | Total | Speed-up |
Baseline method | 556 | – | – | – | 203 | 130 | – | – | 889 | 0.48 |
NGMLR-Sniffles | – | 5446 | – | – | 202 | 123 | – | – | 5771 | 3.14 |
Most sensitive method | 556 | 5446 | – | 105 | 346 | 142 | 147 | 1 | 6743 | 3.66 |
SVNN | 556 | 278 | 439 | 97 | 205 | 128 | 134 | 1 | 1838 | 1 |