2011 · 20 citations · 12 references
Natural SciencesChemistryComputational ChemistryDrug DiscoveryStructural BioinformaticsChemical Space ExplorationComputational ModelingEnergy MinimizationMolecular ModelingMolecular SimulationParameter OptimizationMolecular Simulation AlgorithmsParameter Space AnalysisParameter Space ExplorationReference Data ComparisonReference Data ValidationSystematic Sampling
Parameter optimization for chemical systems requires generation of initial guesses. These parameters should be generated using systematic sampling of parameter space, minimizing differences between output data and the corresponding reference data. In this paper we discuss the ParamChem project, which is creating reusable and extensible infrastructure for the computational chemistry community that will reduce unnecessary and eliminate redundancies in parametrized computations using modern software engineering tools.
12
Development and testing of a general amber force field
Junmei Wang, Romain M. Wolf, James W. Caldwell et al. · Journal of Computational Chemistry · 2004 · 19.6K citations
Kenno Vanommeslaeghe, Elizabeth Hatcher, Chitrangada Acharya et al. · Journal of Computational Chemistry · 2009 · 7.5K citations · Full text
Taverna: a tool for building and running workflows of services
Duncan Hull, Katherine Wolstencroft, Richard Stevens et al. · Nucleic Acids Research · 2006 · 952 citations · Full text
The MyProxy online credential repository
Jim Basney, Marty Humphrey, Von Welch · Software Practice and Experience · 2005 · 194 citations · Full text