Table 4 Execution time of GATK HC implementations
From: GPU accelerated sequence alignment with traceback for GATK HaplotypeCaller
| Total time (s) | Speedup | |
|---|---|---|
| Baseline | 8034.05 | - |
| GPU (only pair-HMMs) | 4687.08 | 1.71x |
| GPU (pair-HMMs + semi-global alignment with traceback) | 3490.70 | 2.30x |
