Low-Cost Smith-Waterman Acceleration

Due to advancing technology, genetic sequencing has become cheaper over the years. This has caused the demand for computational power to grow even faster than Moore's law. To remedy this problem, we analyzed low-cost hardware solutions to parallelize the computational part of the genetic sequencing. We proposed a novel method for calculating the...

FPGA Hardware acceleration of co-occurring aberrations in aCGH data

Unbalanced transaction can lead to addition and deletions in genes, which can be an indication of tumor cells. This is measured with array Comparative Genomic Hybridization. To find co-occurring aberrations in DNA, an algorithm was designed. However the execution takes days to find these DNA aberrations. This thesis proposes a partial FPGA based...