Skip to main content

Advertisement

Table 2 A comparison with CUDASW++ 2.0

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 + + +
  1. The table compares the optimization steps adapted by DOPA and CUDASW++ 2.0.