Table 9 Number of SNVs called by GATK-UGT with different cutoffs of HaplotypeScore
From: Comparing a few SNP calling algorithms using low-coverage sequencing data
Cutoffs | SNVs | dbSNPs | Non-dbSNPs |
|---|---|---|---|
=0 | 613 | 419 | 194 |
≥ 1 | 638 | 431 | 207 |
≥ 2 | 653 | 437 | 216 |
≥ 5 | 680 | 448 | 232 |
≥ 10 | 693 | 453 | 240 |
≥ 13 | 703 | 459 | 244 |
≥ 20 | 707 | 462 | 245 |
≥ 30 | 718 | 468 | 250 |
all | 729 | 478 | 251 |