From: SVNN: an efficient PacBio-specific pipeline for structural variations calling using neural networks
Method | Time (s) | Â | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
 | Minimap2 | NGMLR | Find reads in fastQ | Unify outputs | SAM to BAM | Sniffles | SVIM | Remove redundancy | Total | Speed-up |
Baseline method | 204 | – | – | – | 61 | 37 | – | – | 302 | 0.25 |
NGMLR-Sniffles | – | 1961 | – | – | 50 | 34 | – | – | 2045 | 1.74 |
Most sensitive method | 204 | 1961 | – | 28 | 65 | 37 | 43 | 2 | 2340 | 1.98 |
SVNN | 204 | 665 | 146 | 21 | 64 | 37 | 40 | 2 | 1179 | 1 |