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jModelTest 2: more models, new heuristics and parallel computing
jModelTest 2: more models, new heuristics and parallel computing Diego Darriba, Guillermo L. Taboada, Ramón Doallo and David Posada Supplementary Table 1. New features in jModelTest 2 SupplementaryExpand
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ProtTest 3: fast selection of best-fit models of protein evolution
TLDR
We have implemented a high-performance computing (HPC) version of ProtTest that can be executed in parallel in multicore desktops and clusters. Expand
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Parallel Programming with Polaris
TLDR
Parallel programming with Polaris, an experimental translator of conventional Fortran programs that target machines such as the Cray T3D. Expand
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Adaptive line placement with the set balancing cache
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We present a technique that aims to balance the pressure on the cache sets by detecting when it may be beneficial to associate sets, displacing lines from stressed sets to underutilized ones. Expand
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High-performance VLSI architecture for the Viterbi algorithm
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The Viterbi algorithm (VA) is known to be an efficient method for the realization of maximum-likelihood (ML) decoding of convolutional codes. Expand
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F-MPJ: scalable Java message-passing communications on parallel systems
TLDR
This paper presents F-MPJ (Fast MPJ), a scalable and efficient Message-Passing in Java (MPJ) communication middleware for parallel computing. Expand
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Java in the High Performance Computing arena: Research, practice and experience
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This paper analyzes the current state of Java for HPC, both for shared and distributed memory programming, presents related research projects, and finally evaluates the performance of current Java HPC solutions and research developments on two shared memory environments and two InfiniBand multi-core clusters. Expand
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Research Article: A GIS-embedded system to support land consolidation plans in Galicia
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This paper describes an experimental system embedded in a GIS environment to aid rural engineers to develop land consolidation plans. Expand
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General‐purpose computation on GPUs for high performance cloud computing
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This paper evaluates GPGPU for high performance cloud computing on a public cloud computing infrastructure, Amazon EC2 Cluster GPU Instances (CGI), equipped with NVIDIA Tesla GPUs and a 10 Gigabit Ethernet network. Expand
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Automatic analytical modeling for the estimation of cache misses
TLDR
We present a methodology to build analytical models for codes with regular access patterns in isolated perfectly nested loops on set associative caches and presents a good degree of accuracy. Expand
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