From: TE-Tracker: systematic identification of transposition events through whole-genome resequencing
Software | RetroSeq | TE-Tracker | Delly | Hydra | GASVPro | Variation Hunter Common Law |
---|---|---|---|---|---|---|
Input data | PE reads | MP reads | PE reads | MP reads | PE reads | PE reads |
Filter | None | >10 supporting pairs | >2 supporting pairs | >10 supporting pairs | >2 supporting pairs | >10 supporting pairs |
Filtered predictions | 190 | 351 | 795 | 10,366 | 6,448 | 26 |
FP | 20 | 82 | 564 | 10,017 | 6,358 | 20 |
# Insertion found | 146 | 260 | 282 | 139 | 247 | 6 |
# Insertion + correct donor found | 128 | 244 (243) | 214 | 139 | 225 | 0 |
Positive predictive value (PPV) | 67.3% | 69.5% | 26.9% | 1.3% | 3.5% | 0% |
Sensitivity | 42.6% | 81.3% | 71.3% | 46.3% | 75% | 0% |