Table 3.
DeepVariant’s miscall and accurate call result on HG001 and HG002 optimal/suboptimal SA
| Optimal SA | Suboptimal SA | ||||||
|---|---|---|---|---|---|---|---|
| Miscall (#) | Accurate Call (#) | MR | Miscall (#) | Accurate Call (#) | MR | ||
| HG001 | Indels | 301,842 | 504,522 | 37.43% | 376,077 | 515,540 | 42.18% |
| SNVs | 344,490 | 3,247,597 | 9.59% | 543,627 | 3,262,744 | 14.28% | |
| Total Variants | 646,332 | 3,752,119 | 14.69% | 919,704 | 3,778,284 | 19.58% | |
| HG002 | Indels | 314,942 | 561,731 | 35.92% | 329,933 | 563,457 | 36.93% |
| SNVs | 340,881 | 3,349,442 | 9.24% | 447,245 | 3,353,974 | 11.77% | |
| Total Variants | 655,823 | 3,911,173 | 14.36% | 777,178 | 3,917,431 | 16.55% | |