Variant caller | Sets | Variants | SNPs | INDELs | Ti:Tv ratio | High impact predicted SNPs / INDELs |
---|---|---|---|---|---|---|
GATK | Raw | 18,654,649 (831,391) | 16,135,130 (58,049) | 2,617,546 (773,342) | 2.16 | 2680 / 4493 |
GATK | Filtered-out | 1,453,366 (239,008) | 1,271,522 (8577) | 279,871 (230,431) | 1.66 | 428 / 500 |
GATK | Filtered | 17,201,283 (592,383) | 14,863,608 (49,472) | 2,337,675 (542,911) | 2.20 | 2252 / 3993 |
DV | Raw | 18,748,114 (702,173) | 16,554,438 (54,438) | 2,401,933 (647,735) | 2.24 | 3530 / 2778 |
DV | Filtered-out | 1,571,454 (270,963) | 1,174,815 (11,834) | 393,927 (259,108) | 2.19 | 1061 / 612 |
DV | Filtered | 17,440,238 (577,997) | 15,361,785 (42,899) | 2,240,627 (535,098) | 2.24 | 2474 / 2240 |