Leveraging Similar Regions to Improve Genome Data Processing

Though DNA sequencing has improved dramatically over the past decade, variant calling, which is the process of reconstructing a patient’s genome from the reads that the sequencers produce, remains a difficult problem, largely due to the genome’s redundant structure. In this thesis, we describe SiRen, our algorithm for characterizing the genome’s structure in a way that makes sense from the perspective of the reads themselves. We use the term...