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Title: Accelerating the phylogenetic parsimony function on heterogeneous systems: Accelerating the phylogenetic parsimony function on heterogeneous systems

Journal Article · · Concurrency and Computation. Practice and Experience
DOI: https://doi.org/10.1002/cpe.4046 · OSTI ID:1401259
 [1];  [2];  [2];  [1]
  1. Department of Computer and Communications Technologies, University of Extremadura, Escuela Politécnica, Campus Universitario s/n, Cáceres 10003 Spain
  2. INESC-ID, IST, Universidade de Lisboa, Lisboa 1000-029 Portugal

Sponsoring Organization:
USDOE Office of Nuclear Energy (NE), Fuel Cycle Technologies (NE-5)
Grant/Contract Number:
UID/CEC/50021/2013; PTDC/EEI-ELC/3152/2012; FPU12/04101; ACCION-III-04
OSTI ID:
1401259
Journal Information:
Concurrency and Computation. Practice and Experience, Journal Name: Concurrency and Computation. Practice and Experience Vol. 29 Journal Issue: 8; ISSN 1532-0626
Publisher:
Wiley Blackwell (John Wiley & Sons)Copyright Statement
Country of Publication:
United Kingdom
Language:
English
Citation Metrics:
Cited by: 1 work
Citation information provided by
Web of Science

References (28)

Life-history evolution and mitogenomic phylogeny of caecilian amphibians journal April 2014
Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology journal December 1971
Resource-efficient utilization of CPU/GPU-based heterogeneous supercomputers for Bayesian phylogenetic inference journal March 2013
Large-scale analysis of NBS domain-encoding resistance gene analogs in Triticeae journal September 2014
Parallel implementation of DNAml program on message-passing architectures journal June 1998
Genetic Algorithms and Parallel Processing in Maximum-Likelihood Phylogeny Inference journal October 2002
High-Performance Algorithm Engineering for Computational Phylogenetics journal January 2002
BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics journal October 2011
Fast Fitch-Parsimony Algorithms for Large Data Sets journal December 1998
Comparing Hardware Accelerators in Scientific Applications: A Case Study journal January 2011
A Survey of Parallel Programming Models and Tools in the Multi and Many-Core Era journal August 2012
The Phylogenetic Handbook book March 2009
Many-core algorithms for statistical phylogenetics journal April 2009
Phylogenetic Diversity of the Enteric Pathogen Salmonella enterica subsp. enterica Inferred from Genome-Wide Reference-Free SNP Characters journal October 2013
The Phylogenetic Likelihood Library journal October 2014
Efficient Implementation of MrBayes on Multi-GPU journal March 2013
The computational complexity of inferring rooted phylogenies by parsimony journal September 1986
Efficient computation of the phylogenetic likelihood function on multi-gene alignments and multi-core architectures journal October 2008
How should gaps be treated in parsimony? A comparison of approaches using simulation journal March 2007
MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space journal February 2012
Parallel Multiobjective Metaheuristics for Inferring Phylogenies on Multicore Clusters journal June 2015
Next-generation DNA sequencing journal October 2008
Sparse Supermatrices for Phylogenetic Inference: Taxonomy, Alignment, Rogue Taxa, and the Phylogeny of Living Turtles journal January 2010
Fine-grain parallelism using multi-core, Cell/BE, and GPU Systems journal August 2012
Impacts of the Cretaceous Terrestrial Revolution and KPg Extinction on Mammal Diversification journal September 2011
Dynamic Load Balancing on Dedicated Heterogeneous Systems book January 2008
Phylogenetics of Seed Plants: An Analysis of Nucleotide Sequences from the Plastid Gene rbcL journal January 1993
Bio++: Efficient Extensible Libraries and Tools for Computational Molecular Evolution journal May 2013

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