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GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit
Article
Article
Sander Pronk; Szilárd Páll; Roland Schulz; Per Larsson; Pär Bjelkmar; Rossen Apostolov; Michael R. Shirts; Jeremy C. Smith · Bioinformatics · 2013
MOTIVATION: Molecular simulation has historically been a low-throughput technique, but faster computers and increasing amounts of genomic and structural data are changing this by enabling large-scale automated simulation...
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GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation
Article
Article
Berk Hess; Carsten Kutzner; David van der Spoel; Erik Lindahl · Journal of Chemical Theory and Computation · 2008
Molecular simulation is an extremely useful, but computationally very expensive tool for studies of chemical and biomolecular systems. Here, we present a new implementation of our molecular simulation toolkit GROMACS whi...
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A parallel approach for backpropagation learning of neural networks
Article
Article
Crespo, María Liz et al · SEDICI UNLP · 1999
Fast response, storage efficiency, fault tolerance and graceful degradation in face of scarce or spurious inputs make neural networks appropiate tools for Intelligent Computer Systems. But on the other hand, learning alg...
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Open Access
Algoritmos evolutivos para optimización multiobjetivo: un estudio comparativo en un ambiente paralelo asíncrono
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Von Lücken, Christian et al · SEDICI UNLP · 2004
El presente trabajo propone el desarrollo de Algoritmos Evolutivos Multiobjetivos paralelos (parallel Multi-Objective Evolutionary Algorithms- pMOEAs). Varios modelos de paralelización alternativos fueron considerados y...
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Open Access
Evolutionary-statistical system for uncertainty reduction problems in wildfires
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BIanchini, Germán et al · SEDICI UNLP · 2012
Fire modelling is used by engineers and scientists to understand and to predict possible fire behaviour. Empirical, semi-empirical, and physical models have been developed to predict wildfire behaviour. Any of these can ...
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Open Access
The collective computing model
Article
Article
Gonzalez, Jesús Alberto et al · SEDICI UNLP · 2000
The parallel computing model used in this paper, the Collective Computing Model (CCM), is a variant of the well-known Bulk Synchronous Parallel (BSP) model. The synchronicity imposed by the BSP model restricts the set of...
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Open Access
A runnable functional formal memetic algorithm framework
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Krasnogor, Natalio et al · SEDICI UNLP · 1998
Historically Functional Programming FP for short has been associated with a small scope of applications mainly academic The computer science community did not pay enough attention to its potential perhaps due t...
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An analysis on selection methods and multirecombination in evolutionary search when solving the job shop scheduling problem
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Stark, Natalia et al · SEDICI UNLP · 2002
Evolutionary algorithms (EAs) can be used as optimisation mechanisms. Based on the model of natural evolution, they work on populations of individuals instead of on single solutions. In this way, the search is performed ...
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Collective computing
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Gonzalez, Jesús Alberto et al · SEDICI UNLP · 2001
The parallel computing model used in this paper, the Collective Computing Model (CCM), is a variant of the well-known Bulk Synchronous Parallel (BSP) model. The synchronicity imposed by the BSP model restricts the set of...
Idioma English
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Formalizando algoritmos concorrentes
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Diverio, Tiarajú A. et al · SEDICI UNLP · 2001
Este trabalho mostra uma forma de pensar concorrente. São utilizados algoritmos de grafos, algoritmo do menor caminho, para mostrar desde a especificação até a implementação de algoritmos concorrentes. Objetiva-se ...
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Open Access
Measuring the component of a divide and conquer skeleton
Article
Article
Printista, Alicia Marcela et al · SEDICI UNLP · 2009
Current performance prediction analytical models try to characterize the performance behavior of actual machines through a small set of parameters. Due to different factors, the predicted times suffer substantial deviati...
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Performance of scientific processing in networks of workstations: matrix multiplication example
Article
Article
Tinetti, Fernando Gustavo · SEDICI UNLP · 2001
Parallel computing on networks of workstations are intensively used in some application areas such as linear algebra operations. Topics such as processing as well as communication hardware heterogeneity are considered so...
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Performance predictability of divide and conquer skeletons
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Saez, Fernando et al · SEDICI UNLP · 2008
Parallel divide and conquer computations, encompassing a wide variety of applications, can be modeled and encapsulated as a high level primitive called skeleton. The paper deals with a skeleton designed for parallel div...
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Open Access
Preserving message integrity in dynamic process migration
Article
Article
Heymann, Elisa et al · SEDICI UNLP · 1999
Processor and network management have a great impact on the performance of Distributed Memory Parallel Computers. Dynamic Process Migration allows load balancing and communication balancing at execution time. Managing th...
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Open Access
Una solución paralela simple al método de difusión de error
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Abdala, G. et al · SEDICI UNLP · 2006
El Halftoning o Mediotonado Digital se utiliza para plasmar imágenes en escala de grises en dispositivos electrónicos que sólo pueden reproducir elementos binarios creando la ilusión de tonos continuo. A pesar de lo...
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Open Access
Scalable molecular dynamics with NAMD
Article
Article
J. C. Phillips; Rosemary Braun; Wei Wang; James C. Gumbart; Emad Tajkhorshid; Elizabeth Villa; Christophe Chipot; Robert D. Skeel · Journal of Computational Chemistry · 2005
NAMD is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. NAMD scales to hundreds of processors on high-end parallel platforms, as well as tens of processors on lo...
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An introduction to computing with neural nets
Article
Article
Richard P. Lippmann · IEEE ASSP Magazine · 1987
Artificial neural net models have been studied for many years in the hope of achieving human-like performance in the fields of speech and image recognition. These models are composed of many nonlinear computational eleme...
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Parallelization of image similarity analysis
Article
Article
Naiouf, Marcelo et al · SEDICI UNLP · 2001
The algorithmical architecture and structure is presented for the parallelization of image similarity analysis, based on obtaining multiple digital signatures for each image, in which each "signature" is composed by the ...
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Open Access
Parallelizing a new environment based clustering method
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Lanzarini, Laura Cristina et al · SEDICI UNLP · 2001
There exists a wide range of problems which requires the automatic classification of a data set. In this sense, clustering techniques have been applied, since they are characterized by forming classes or groups using a p...
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Open Access
4-(<i>N<SUP>2</SUP></i>-1) puzzle: parallelization and performance on clusters
Article
Article
Sanz, Victoria María et al · SEDICI UNLP · 2010
In this paper, an analysis of the 4-(N2-1) Puzzle, which is a generalization of the (N2-1) Puzzle, is presented. This problem is of interest due to its algorithmic and computational complexity and its applications to rob...
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Open Access
4-(N<sup>2</sup>-1) Puzzle: parallelization and performance on clusters
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Sanz, Victoria María et al · SEDICI UNLP · 2009
In this paper, an analysis of the 4-(N2-1) Puzzle, which is a generalization of the (N2-1) Puzzle, is presented. This problem is of interest due to its algorithmic and computational complexity and its applications to rob...
Idioma English
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Open Access
A parallel search algorithm for the SAT
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Gil Costa, Graciela Verónica et al · SEDICI UNLP · 2005
In order to be able to perform multimedia searches (like sounds, videos, images, etc.) we have to use data strucures like the Spatial Approximation Tree (SAT). This structure is a nice example of a tree structure in whic...
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Open Access
Alternative strategies for asynchronous migration-controlled schemes in parallel genetic algorithm
Article
Article
Ochoa, Claudio et al · SEDICI UNLP · 1999
Migration of individuals allows a fruitful interaction between subpopulations in the island model, a well known distributed approach for evolutionary computing, where separate subpopulations evolve in parallel. This mode...
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Open Access
Dynamic load balancing in parallel processing on non-homogeneous clusters
Article
Article
De Giusti, Armando Eduardo et al · SEDICI UNLP · 2005
This paper analyzes the dynamic and static balancing of non-homogenous cluster architectures, simultaneously analyzing the theoretical parallel Speedup as well as the Speedup experimentally obtained. Three interconnected...
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Open Access
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