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Parallel definition of tear film maps on distributed-memory clusters for the support of dry eye diagnosis
(Elsevier Ireland Ltd., 2017)
[Abstract] Background and objectives
The analysis of the interference patterns on the tear film lipid layer is a useful clinical test to diagnose dry eye syndrome. This task can be automated with a high degree of accuracy ...
Parallel and Scalable Short-Read Alignment on Multi-Core Clusters Using UPC++
(Johannes Gutenberg University Mainz, 2016)
[Abstract]: The growth of next-generation sequencing (NGS) datasets poses a challenge to the alignment of reads to reference genomes in terms of alignment quality and execution speed. Some available aligners have been shown ...
A general and efficient divide-and-conquer algorithm framework for multi-core clusters
(SpringerLink, 2017)
[Abstract]Divide-and-conquer is one of the most important patterns of parallelism, being applicable to a large variety of problems. In addition, the most powerful parallel systems available nowadays are computer clusters ...
Fast search of third-order epistatic interactions on CPU and GPU clusters
(Sage Publications Ltd., 2019-05-27)
[Abstract]
Genome-Wide Association Studies (GWASs), analyses that try to find a link between a given phenotype (such as a disease) and genetic markers, have been growing in popularity in the recent years. Relations between ...
Parallel feature selection for distributed-memory clusters
(2019)
[Abstract]: Feature selection is nowadays an extremely important data mining stage in the field of machine learning due to the appearance of problems of high dimensionality. In the literature there are numerous feature ...
parSRA: A framework for the parallel execution of short read aligners on compute clusters
(2018)
[Abstract]: The growth of next generation sequencing datasets poses as a challenge to the alignment of reads to reference genomes in terms of both accuracy and speed. In this work we present parSRA, a parallel framework ...
High-speed exhaustive 3-locus interaction epistasis analysis on FPGAs
(Elsevier B.V., 2015-07)
[Abstract]: Epistasis, the interaction between genes, has become a major topic in molecular and quantitative genetics. It is believed that these interactions play a significant role in genetic variations causing complex ...
Numerical Simulation of Pollutant Transport in a Shallow-Water System on the Cell Heterogeneous Processor
(Springer, 2013)
[Abstract] This paper presents an implementation, optimized for the Cell processor, of a finite volume numerical scheme for 2D shallow-water systems with pollutant transport. A description of the special architecture and ...
Scalable PGAS collective operations in NUMA clusters
(Springer New York LLC, 2014-12)
[Abstract] The increasing number of cores per processor is turning manycore-based systems in pervasive. This involves dealing with multiple levels of memory in non uniform memory access (NUMA) systems and processor cores ...
Performance analysis of HPC applications in the cloud
(Elsevier BV * North-Holland, 2013-01)
[Abstract] The scalability of High Performance Computing (HPC) applications depends heavily on the efficient support of network communications in virtualized environments. However, Infrastructure as a Service (IaaS) providers ...