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Van Rijk, E. (author)With the rise of multi-core chips in commodity hardware, the need for specialized workloads to evaluate the performance of multi-core systems has become apparent. The current generation of workloads used for evaluating multi-core systems often consist of sequential programs not capable of running on multiple processors and are therefore of...master thesis 2009
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Kentie, M.A. (author)Alignment algorithms are used to find similarity between biological sequences, such as DNA and proteins. By aligning a sequence with a database, similar sequences can be found. These can be used to identify the source of a query sequence, to find commonalities between organisms, or to infer an ancestral relation. Various methods of performing...master thesis 2010
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Van Kampenhout, J.R. (author)In this thesis we consider the application of multi-cores in safety critical real-time systems, especially avionics. In our literature study we extract two major challenges. Firstly the unpredictability that comes from the concurrent access of shared resources (especially the on-chip interconnect) must be dealt with. To address this we propose...master thesis 2011
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Zhao, A. (author)FlexRay is the new generation in-vehicle network protocol that enable fast data rate, reliability and fault-tolerant. It is developed by BMW, DaimlerChrysler, Bosch, Philips and other semiconductor companies. Because of the rapid development of the automotive industry, the need for in-vehicle communication is growing beyond the capability of...master thesis 2011
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Vermij, E.P. (author)Genetic sequence alignment is an important tool for researchers. It lets them see the differences and similarities between two genetic sequences. This is used in several fields, like homology research, auto immune disease research and protein shape estimation. There are various algorithms that can perform this task and several hardware platforms...master thesis 2011
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Amarnath, R. (author)The demand to increase performance while conserving power has led to the invention of multi-core systems. The software until now had the convenience of gaining better performance over faster processors without any need for a change. The advances in the multi-core hardware have shifted the responsibility of software performance from hardware...master thesis 2012
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Klanderman, R. (author)Flash memory, created in the early eighties and based upon EEPROM, has become a very popular non-volatile memory since the start of the millennium. A Flash memory cell consists of 1 MOS transistor with a floating gate. The floating gate (in between the channel and the control gate) is able to trap electrons due to writing mechanisms (e.g. Fowler...master thesis 2012
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Strengholt, B. (author), Brobbel, M. (author)With the sequencing of DNA becoming cheaper and the resulting stack of data growing bigger, there is a big challenge for both engineer and biologist. Researchers are limited by their computational power. In this thesis, first an overview of sequence alignment algorithms will be given. Then a method to store the values of the similarity score...bachelor thesis 2013
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Ça?layan, F.H. (author), Heij, R.W. (author), Geers, M. (author)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...bachelor thesis 2013
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Du Nguyen, H.A. (author)The human brain is an incredible system which can process, store, and transfer information with high speed and volume. Inspired by such system, engineers and scientists are cooperating to construct a digital brain with these characteristics. The brain is composed by billions of neurons which can be modeled by mathematical equations. The first...master thesis 2013
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Amir, A. (author)As of 2012, the world creates 2.5 quintillion bytes of data every day. Much of this data generated is what we refer to as Big Data. To explore how Big Data can create potential value and show the technical challenges accompanied with Big Data applications, we choose an application from bio-informatics: the Smith Waterman genetic database...master thesis 2013
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Madan, R. (author)ASML is one of the world's largest suppliers of lithography systems for the semiconductor industry. ASML designs and develops machines that are used to print circuits on silicon wafers, to produce IC chips. These circuits have to be printed with accuracy of up to 2nm. For this purpose, the machines incorporate several measurement systems. The...master thesis 2013
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Lodder, R.J. (author)The amounts of genetic data that are produced is steadily increasing. New methods to sequence genetic data are invented and existing methods are refined, resulting in the generation of more and larger datasets. To extract useful data from these growing datasets, the algorithms processing them have to support the new and larger datasets. In this...master thesis 2014
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Peltenburg, J.W. (author)Over the last decade, the costs of sequencing a human DNA molecule have been drastically reduced. It is therefore expected that the DNA sequence of patients will be used more often as a diagnostics tool in future clinical applications. However, DNA sequencers deliver millions of small fragments from random positions of the very large DNA string....master thesis 2014
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Jambekar, S.W. (author)ASML is a world leading supplier of complex lithography machines for the semiconductor industry. A lithography machine consists of many subsystems, e.g., Light Source, Lens, Reticle handler, Reticle stage, Wafer handler and Wafer stage, which synchronize together to make the machine work. The Reticle stage holds the circuit pattern, also known...master thesis 2014
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Kathareios, G. (author)DNA sequencing is the process of determining the ordered sequence of the four nucleotide bases in a strand of DNA, for storage in an electronic medium. Since the mid-2000s, with the advent of “Next-Generation” sequencing technologies, the production rate of sequencing data has surpassed the rate with which hard disc prices are decreasing,...master thesis 2014
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Gopalakrishna, N. (author)Execution time analysis forms an important part of design space and hardware architectural exploration for hard real-time systems. Some approaches for execution time analysis require prerequisite knowledge of synchronous data flows or timed automata employed in model checkers. This is unsuitable for industry-level use as easy approaches without...master thesis 2014
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Patsis, K. (author)The goal of this study was to dive into the novel techniques associated with the use of the available Third Generation DNA Sequencing (TGS) platform, PacBio. This 3-year old technology sounded promising right from the beginning but its groundbreaking attributes, like length and error content, required unconventional handling to yield worthwhile...master thesis 2014
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Padmanabharao, P.K. (author)Next Generation Sequencing technologies have had a tremendous impact on our understanding of DNA and its role in living organisms. The cost of DNA sequencing has decreased drastically over the past decade, leading the way for personalised genomics. Sequencers provide millions of fragments of DNA (termed short reads), which have to be aligned...master thesis 2014
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Hubregtsen, T.S. (author)Big Data systems have been used for multiple years to solve problems that require scale. A framework takes care of scalability and resiliency issues, and allows the user to focus on relevant computation, in the form of map and reduce functions. In these Big Data systems, we currently see a shift from the traditional use of the Hard Disk Drive ...master thesis 2015