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Full-Text Articles in Physical Sciences and Mathematics
Compilation Optimizations To Enhance Resilience Of Big Data Programs And Quantum Processors, Travis D. Lecompte
Compilation Optimizations To Enhance Resilience Of Big Data Programs And Quantum Processors, Travis D. Lecompte
LSU Doctoral Dissertations
Modern computers can experience a variety of transient errors due to the surrounding environment, known as soft faults. Although the frequency of these faults is low enough to not be noticeable on personal computers, they become a considerable concern during large-scale distributed computations or systems in more vulnerable environments like satellites. These faults occur as a bit flip of some value in a register, operation, or memory during execution. They surface as either program crashes, hangs, or silent data corruption (SDC), each of which can waste time, money, and resources. Hardware methods, such as shielding or error correcting memory (ECM), …
High-Performance Computing Frameworks For Large-Scale Genome Assembly, Sayan Goswami
High-Performance Computing Frameworks For Large-Scale Genome Assembly, Sayan Goswami
LSU Doctoral Dissertations
Genome sequencing technology has witnessed tremendous progress in terms of throughput and cost per base pair, resulting in an explosion in the size of data. Typical de Bruijn graph-based assembly tools demand a lot of processing power and memory and cannot assemble big datasets unless running on a scaled-up server with terabytes of RAMs or scaled-out cluster with several dozens of nodes. In the first part of this work, we present a distributed next-generation sequence (NGS) assembler called Lazer, that achieves both scalability and memory efficiency by using partitioned de Bruijn graphs. By enhancing the memory-to-disk swapping and reducing the …