From: DOPA: GPU-based protein alignment using database and memory access optimizations
No. | Optimizations | CUDASW++ 2.0 | DOPA (less optimized) | DOPA (optimized) |
---|---|---|---|---|
1 | Database sorting | + | + | + |
2 | Concatenation into sequence groups | - | + | + |
3 | Interlacing | + | + | + |
4 | Equal length sequence sets | - | - | + |
5 | Query profile | + | + | + |