This is a bid to implement the Smith-Waterman algorithm in C, and then to re-implement it in a parallel environment using CUDA version 1.1 (For a GeForce 8800 GT GPU).
The deliverables will be a manual (write-up) of the process, and the code for implementation in C and CUDA.
I am a college senior in Electrical Engineering and Mathematics, and have a lot of recent experience programming in C.