Table 4.
SV features and their contributions in the random forest classifier for CHM13
| Feature | Description | SV caller | Contribution | |||
|---|---|---|---|---|---|---|
| Sniffles | NanoSV | Picky | Deletion (%) | Insertion (%) | ||
| SVLEN | Length of the SV | Yes | Yes | Yes | 52 | 55 |
| DEPTHPVAL | P value of the significance test of the depth of coverage at possible breakpoint junctions | No | Yes | No | 20 | 15 |
| RE | Read support | Yes | No | Yes | 7 | 14 |
| MAPQ | Median mapping quality of read pairs | Yes | Yes | No | 10 | 8 |
| CIEND | Confidence interval around the END position | No | Yes | Yes | 3 | 3 |
| CIPOS | Confidence interval around the POS position | No | Yes | Yes | 2 | 2 |
| PRECISE | Precise structural variant | Yes | Yes | Yes | 5 | 1 |
“Yes/No” under SV callers indicates whether a feature is provided by an SV caller