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Motivation: Estimating parameters from data is a key stage of the modelling process, particularly in biological systems where many parameters need to be estimated from sparse and noisy data sets. Over the years, a variety of heuristics have…

Quantitative Methods · Quantitative Biology 2011-11-07 Mariano Beguerisse-Diaz , Baojun Wang , Radhika Desikan , Mauricio Barahona

In this paper we propose a method for the construction of locally conservative flux fields from Generalized Multiscale Finite Element Method (GMsFEM) pressure solutions. The flux values are obtained from an element-based postprocessing…

Analysis of PDEs · Mathematics 2013-04-24 Lawrence Bush , Victor Ginting , Michael Presho

Meshfree simulation methods are emerging as compelling alternatives to conventional mesh-based approaches, particularly in the fields of Computational Fluid Dynamics (CFD) and continuum mechanics. In this publication, we provide a…

Machine Learning · Computer Science 2024-03-21 Paulami Banerjee , Mohan Padmanabha , Chaitanya Sanghavi , Isabel Michel , Simone Gramsch

A one-dimensional, dynamic, two-phase, isothermal model of proton exchange membrane fuel cell systems using a finite-difference approach has been developed. This model balances the simplicity of lumped-parameter models with the detailed…

Systems and Control · Electrical Eng. & Systems 2026-01-28 Raphaël Gass , Zhongliang Li , Rachid Outbib , Samir Jemei , Daniel Hissel

This paper studies the parameter tuning problem of positive linear systems for optimizing their stability properties. We specifically show that, under certain regularity assumptions on the parametrization, the problem of finding the…

Optimization and Control · Mathematics 2019-11-26 Masaki Ogura , Masako Kishida , James Lam

We investigate an optimization problem that arises when working within the paradigm of Data-Driven Computational Mechanics. In the context of the diffusion-reaction problem, such an optimization problem seeks for the continuous primal…

Numerical Analysis · Mathematics 2025-06-13 Pedro B. Bazon , Cristian G. Gebhardt , Gustavo C. Buscaglia , Roberto F. Ausas

The paper presents a novel, parameter free, density evaluation method for topology optimization based on normalized product of a scalar field. The approach imposes length scale on solid phase implicitly and allows for pure 0-1 singularity…

Mathematical Physics · Physics 2022-08-25 Nikhil Singh , Anupam Saxena

We advance a combined filtered/phase-field approach to topology optimization in the setting of linearized elasticity. Existence of minimizers is proved and rigorous parameter asymptotics are discussed by means of variational convergence…

Optimization and Control · Mathematics 2024-01-24 Ferdinando Auricchio , Michele Marino , Idriss Mazari , Ulisse Stefanelli

Likelihood-free inference is quickly emerging as a powerful tool to perform fast/effective parameter estimation. We demonstrate a technique of optimizing likelihood-free inference to make it even faster by marginalizing symmetries in a…

Machine Learning · Computer Science 2023-12-14 Deep Chatterjee , Philip C. Harris , Maanas Goel , Malina Desai , Michael W. Coughlin , Erik Katsavounidis

The penalization method is a popular technique to provide particle swarm optimizers with the ability to handle constraints. The downside is the need of penalization coefficients whose settings are problem-specific. While adaptive…

Neural and Evolutionary Computing · Computer Science 2021-01-28 Mauro S. Innocente , Johann Sienz

A design optimization framework for process parameters of additive manufacturing based on finite element simulation is proposed. The finite element method uses a coupled thermomechanical model developed for fused deposition modeling from…

Numerical Analysis · Mathematics 2025-01-29 Jingyi Wang , Panayiotis Papadopoulos

An iterative optimization algorithm with MD simulations in the loop is developed and applied to optimize Lennard-Jones (LJ) parameters specific for liquid tri-n-butyl phosphate (TBP). The optimization loop uses non-dominated sorting genetic…

Chemical Physics · Physics 2026-04-30 Faranak Hatami , Valmor F. de Almeida

Machine learning encompasses a set of tools and algorithms which are now becoming popular in almost all scientific and technological fields. This is true for molecular dynamics as well, where machine learning offers promises of extracting…

We investigate multi-physical topology optimization for microfluidic mixers employing the phase-field model. The optimization problem is formulated using a modified Ginzburg-Landau free energy functional. To eliminate fluid blockage in…

Optimization and Control · Mathematics 2025-10-23 Zongyuan Liu , Jiajie Li , Shengfeng Zhu

The predictive simulation of molecular liquids requires models that are not only accurate, but computationally efficient enough to handle the large systems and long time scales required for reliable prediction of macroscopic properties. We…

Several recently proposed semi--automatic and fully--automatic coarse--graining schemes for polymer simulations are discussed. All these techniques derive effective potentials for multi--atom units or super--atoms from atomistic…

Soft Condensed Matter · Physics 2007-05-23 Roland Faller

A common theme in robot assembly is the adoption of Manipulation Primitives as the atomic motion to compose assembly strategy, typically in the form of a state machine or a graph. While this approach has shown great performance and…

Robotics · Computer Science 2023-06-14 Nghia Vuong , Quang-Cuong Pham

Parameterization and approximation are two popular ways of coping with NP-hard problems. More recently, the two have also been combined to derive many interesting results. We survey developments in the area both from the algorithmic and…

Data Structures and Algorithms · Computer Science 2020-06-09 Andreas Emil Feldmann , Karthik C. S. , Euiwoong Lee , Pasin Manurangsi

In this work, we consider pressurized phase-field fracture problems in nearly and fully incompressible materials. To this end, a mixed form for the solid equations is proposed. To enhance the accuracy of the spatial discretization, a…

Numerical Analysis · Mathematics 2022-09-21 Seshadri Basava , Katrin Mang , Mirjam Walloth , Thomas Wick , Winnifried Wollner

We investigate the potential of numerical algorithms to decipher the kinetic parameters involved in multi-step chemical reactions. To this end we study a dimerization kinetics of protein as a model system. We follow the dimerization…

Biological Physics · Physics 2014-12-24 Srijeeta Talukder , Shrabani Sen , Ralf Metzler , Suman K Banik , Pinaki Chaudhury
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