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Benchmarking Sets for Molecular Docking

by Niu Huang, Brian K. Shoichet, John J. Irwin - J. Med. Chem
"... Ligand enrichment among top-ranking hits is a key metric of molecular docking. To avoid bias, decoys should resemble ligands physically, so that enrichment is not simply a separation of gross features, yet be chemically distinct from them, so that they are unlikely to be binders. We have assembled a ..."
Abstract - Cited by 77 (4 self) - Add to MetaCart
benchmarking set for docking at

The nas parallel benchmarks

by D. H. Bailey, E. Barszcz, J. T. Barton, D. S. Browning, R. L. Carter, R. A. Fatoohi, P. O. Frederickson, T. A. Lasinski, H. D. Simon, V. Venkatakrishnan, S. K. Weeratunga - The International Journal of Supercomputer Applications , 1991
"... A new set of benchmarks has been developed for the performance evaluation of highly parallel supercomputers. These benchmarks consist of ve \parallel kernel " benchmarks and three \simulated application" benchmarks. Together they mimic the computation and data movement characterist ..."
Abstract - Cited by 694 (9 self) - Add to MetaCart
A new set of benchmarks has been developed for the performance evaluation of highly parallel supercomputers. These benchmarks consist of ve \parallel kernel " benchmarks and three \simulated application" benchmarks. Together they mimic the computation and data movement

The PARSEC benchmark suite: Characterization and architectural implications

by Christian Bienia, Sanjeev Kumar, Jaswinder Pal Singh, Kai Li - IN PRINCETON UNIVERSITY , 2008
"... This paper presents and characterizes the Princeton Application Repository for Shared-Memory Computers (PARSEC), a benchmark suite for studies of Chip-Multiprocessors (CMPs). Previous available benchmarks for multiprocessors have focused on high-performance computing applications and used a limited ..."
Abstract - Cited by 518 (4 self) - Add to MetaCart
number of synchronization methods. PARSEC includes emerging applications in recognition, mining and synthesis (RMS) as well as systems applications which mimic large-scale multithreaded commercial programs. Our characterization shows that the benchmark suite covers a wide spectrum of working sets

Benchmarking Least Squares Support Vector Machine Classifiers

by Tony Van Gestel, Johan A. K. Suykens, Bart Baesens, Stijn Viaene, Jan Vanthienen, Guido Dedene, Bart De Moor, Joos Vandewalle - NEURAL PROCESSING LETTERS , 2001
"... In Support Vector Machines (SVMs), the solution of the classification problem is characterized by a (convex) quadratic programming (QP) problem. In a modified version of SVMs, called Least Squares SVM classifiers (LS-SVMs), a least squares cost function is proposed so as to obtain a linear set of eq ..."
Abstract - Cited by 476 (46 self) - Add to MetaCart
stage by gradually pruning the support value spectrum and optimizing the hyperparameters during the sparse approximation procedure. In this paper, twenty public domain benchmark datasets are used to evaluate the test set performance of LS-SVM classifiers with linear, polynomial and radial basis function

Robust Benchmark Set Selection for Boolean Constraint Solvers

by H. Hoos, B. Kaufmann, T. Schaub, M. Schneider
"... Abstract. We investigate the composition of representative benchmark sets for evaluating and improving the performance of robust Boolean constraint solvers in the context of satisfiability testing and answer set programming. Starting from an analysis of current practice, we isolate a set of desidera ..."
Abstract - Cited by 3 (2 self) - Add to MetaCart
Abstract. We investigate the composition of representative benchmark sets for evaluating and improving the performance of robust Boolean constraint solvers in the context of satisfiability testing and answer set programming. Starting from an analysis of current practice, we isolate a set

Robust Benchmark Set Selection for Boolean Constraint Solvers

by Holger H. Hoos(b, B. Kaufmann, T. Schaub, M. Schneider
"... Abstract. We investigate the composition of representative benchmark sets for evaluating and improving the performance of robust Boolean con-straint solvers in the context of satisfiability testing and answer set pro-gramming. Starting from an analysis of current practice, we isolate a set of deside ..."
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Abstract. We investigate the composition of representative benchmark sets for evaluating and improving the performance of robust Boolean con-straint solvers in the context of satisfiability testing and answer set pro-gramming. Starting from an analysis of current practice, we isolate a set

Using information content to evaluate semantic similarity in a taxonomy

by Philip Resnik - In Proceedings of the 14th International Joint Conference on Artificial Intelligence (IJCAI-95 , 1995
"... philip.resnikfleast.sun.com This paper presents a new measure of semantic similarity in an IS-A taxonomy, based on the notion of information content. Experimental evaluation suggests that the measure performs encouragingly well (a correlation of r = 0.79 with a benchmark set of human similarity judg ..."
Abstract - Cited by 1097 (8 self) - Add to MetaCart
philip.resnikfleast.sun.com This paper presents a new measure of semantic similarity in an IS-A taxonomy, based on the notion of information content. Experimental evaluation suggests that the measure performs encouragingly well (a correlation of r = 0.79 with a benchmark set of human similarity

Development and Analysis of an Interactive Physical Modeling Benchmark Set

by Darlene Banta, Brenda Aldine, Benjamin Bishop (presenting, Darlene Banta
"... Abstract — The goal of this work is to gain an understanding of the execution characteristics of certain interactive simulations. In order to achieve this, we collected a small benchmark set of physical modeling simulation applications 1. We then extended these to include a userspecified level of de ..."
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Abstract — The goal of this work is to gain an understanding of the execution characteristics of certain interactive simulations. In order to achieve this, we collected a small benchmark set of physical modeling simulation applications 1. We then extended these to include a userspecified level

The DaCapo Benchmarks: Java Benchmarking Development and Analysis

by Stephen M Blackburn, Robin Garner , Chris Hoffmann , Asjad M Khan , Kathryn S Mckinley , Rotem Bentzur , Amer Diwan , Daniel Feinberg , Daniel Frampton , Samuel Z Guyer , Martin Hirzel , Antony Hosking , Maria Jump , Han Lee , J Eliot B Moss, Aashish Phansalkar , Darko Stefanović , Thomas Vandrunen , Daniel Von Dincklage , Ben Wiedermann
"... Since benchmarks drive computer science research and industry product development, which ones we use and how we evaluate them are key questions for the community. Despite complex runtime tradeoffs due to dynamic compilation and garbage collection required for Java programs, many evaluations still us ..."
Abstract - Cited by 397 (65 self) - Add to MetaCart
Capo benchmarks, a set of open source, client-side Java benchmarks. We demonstrate that the complex interactions of (1) architecture, (2) compiler, (3) virtual machine, (4) memory management, and (5) application require more extensive evaluation than C, C++, and Fortran which stress (4) much less, and do

Semantic Similarity in a Taxonomy: An Information-Based Measure and its Application to Problems of Ambiguity in Natural Language

by Philip Resnik , 1999
"... This article presents a measure of semantic similarityinanis-a taxonomy based on the notion of shared information content. Experimental evaluation against a benchmark set of human similarity judgments demonstrates that the measure performs better than the traditional edge-counting approach. The a ..."
Abstract - Cited by 609 (9 self) - Add to MetaCart
This article presents a measure of semantic similarityinanis-a taxonomy based on the notion of shared information content. Experimental evaluation against a benchmark set of human similarity judgments demonstrates that the measure performs better than the traditional edge-counting approach
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