Table 4 Accuracy of Jitterbug and RetroSeq at detecting homozygous (HOM) and heterozygous (HET) TEI, and predicting their zygosity, in simulated human dataset (simulated reads)
From: Jitterbug: somatic and germline transposon insertion detection at single-nucleotide resolution
Coverage | TP | FP | FN | PPV (%) | Sensitivity (%) | Accurate Zygosity (%) | HET detected (%) | HOM detected (%) | |
|---|---|---|---|---|---|---|---|---|---|
Jitterbug | 10X | 2693 | 1 | 579 | 99.96 | 82.3 | 94.83 | 78.52 | 86.08 |
20X | 2825 | 0 | 447 | 100 | 86.34 | 99.58 | 84.58 | 88.10 | |
40X | 2919 | 0 | 353 | 100 | 89.21 | 100 | 88.25 | 90.17 | |
RetroSeq | 10X | 1308 | 23 | 1964 | 98.27 | 39.98 | - | 8.51 | 71.37 |
20X | 2528 | 115 | 744 | 95.56 | 77.26 | - | 72.28 | 82.23 | |
40X | 2754 | 258 | 518 | 91.43 | 84.17 | - | 81.70 | 86.63 |