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A simulated annealing algorithm for zoning in planning using parallel computing
(Pergamon Press, 2016)
[Abstract] There is an increasing demand for tools that support land use planning processes, particularly the design of zoning maps, which is one of the most complex tasks in the field. In this task, different land use ...
Analysis and evaluation of MapReduce solutions on an HPC cluster
(Pergamon Press, 2016-02)
[Abstract] The ever growing needs of Big Data applications are demanding challenging capabilities which cannot be handled easily by traditional systems, and thus more and more organizations are adopting High Performance ...
Implementing Parallel Differential Evolution on Spark
(Springer, 2016-04-02)
[Abstract] Metaheuristics are gaining increased attention as an efficient way of solving hard global optimization problems. Differential Evolution (DE) is one of the most popular algorithms in that class. However, its ...
Prediction of missing sequences and branch lengths in phylogenomic data
(Oxford University Press, 2016-01-05)
[Abstract] Motivation: The presence of missing data in large-scale phylogenomic datasets has negative effects on the phylogenetic inference process. One effect that is caused by alignments with missing per-gene or per-partition ...
Locality-Aware Automatic Parallelization for GPGPU with OpenHMPP Directives
(Springer New York LLC, 2016-06)
[Abstract] The use of GPUs for general purpose computation has increased dramatically in the past years due to the rising demands of computing power and their tremendous computing capacity at low cost. Hence, new programming ...
Performance evaluation of Data-Intensive Computing Applications on a public IaaS cloud
(Oxford University Press, 2016-03-01)
[Abstract] The advent of cloud computing technologies, which dynamically provide on-demand access to computational resources over the Internet, is offering new possibilities to many scientists and researchers. Nowadays, ...
MPI and UPC broadcast, scatter and gather algorithms in Xeon Phi
(John Wiley & Sons Ltd., 2016-05-06)
[Abstract] Accelerators have revolutionised the high performance computing (HPC) community. Despite their advantages, their very specific programming models and limited communication capabilities have kept them in a ...
Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures
(Institute of Electrical and Electronics Engineers, 2016-08)
[Abstract] Development of new methods to detect pairwise epistasis, such as SNP-SNP interactions, in Genome-Wide Association Studies is an important task in bioinformatics as they can help to explain genetic influences on ...
Flame-MR: An event-driven architecture for MapReduce applications
(Elsevier BV * North-Holland, 2016)
[Abstract] Nowadays, many organizations analyze their data with the MapReduce paradigm, most of them using the popular Apache Hadoop framework. As the data size managed by MapReduce applications is steadily increasing, the ...
Does the choice of nucleotide substitution models matter topologically?
(BioMed Central Ltd., 2016-03-24)
[Abstract] Background: In the context of a master level programming practical at the computer science department of the Karlsruhe Institute of Technology, we developed and make available an open-source code for testing all ...