DNA Assembly with De Bruijn Graphs Using an FPGA Platform.

This paper presents an FPGA implementation of a DNA assembly algorithm, called Ray, initially developed to run on parallel CPUs. The OpenCL language is used and the focus is placed on modifying and optimizing the original algorithm to better suit the new parallelization tool and the radically different hardware architecture. The results show that the execution time is roughly one fourth that of the CPU and factoring energy consumption yields a tenfold savings.

DNA assembly with de bruijn graphs on FPGA.

This project aims to see if accelerators based on FPGAs are worthwhile for DNA assembly. It involves reprogramming an already existing algorithm - called Ray - to be run either on such an accelerator or on a CPU to be able to compare both. It has been achieved using the OpenCL language.