map well are essential when porting applications to hybrid architectures

Matei Ripeanu T his work sheds light on the importance of carefully considering the choice of the data structures used when porting applications to hybrid architectures (e.g., GPU-based platforms). In this context, we analyze and evaluate the impact of the data structures used to support ‘sequence alignment,’ one of the most computationally intensive bioinformatics problems. MUMmerGPU++, our exact sequence alignment tool that benefits from this analysis, demonstrates significant speedups compared to a state-of-the-art previous effort on real-life workloads (Figure 1).