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A molecule's geometry, also known as conformation, is one of a molecule's most important properties, determining the reactions it participates in, the bonds it forms, and the interactions it has with other molecules. Conventional…

Machine Learning · Computer Science 2020-01-01 Elman Mansimov , Omar Mahmood , Seokho Kang , Kyunghyun Cho

Modern machine learning models have started to consume incredible amounts of energy, thus incurring large carbon footprints (Strubell et al., 2019). To address this issue, we have created an energy estimation pipeline1, which allows…

Machine Learning · Computer Science 2023-04-04 Johannes Getzner , Bertrand Charpentier , Stephan Günnemann

Modeling chemical reactions and complicated molecular systems has been proposed as the `killer application' of a future quantum computer. Accurate calculations of derivatives of molecular eigenenergies are essential towards this end,…

Direct correlation functions (DCFs), linked to the second functional derivative of the free energy with respect to the one-particle density, play a fundamental role in a statistical mechanics description of matter. This holds in particular…

Soft Condensed Matter · Physics 2021-08-25 S. -C. Lin , M. Oettel , J. M. Hring , R. Haussmann , M. Fuchs , G. Kahl

We present a quantitatively accurate machine-learning (ML) model for the computational prediction of core-electron binding energies, from which x-ray photoelectron spectroscopy (XPS) spectra can be readily obtained. Our model combines…

The accurate prediction of solvation free energy is of significant importance as it governs the behavior of solutes in solution. In this work, we apply a variety of machine learning techniques to predict and analyze the alchemical free…

Chemical Physics · Physics 2024-11-11 Mingjun Han , Yukai Zhang , Taotao Yu , Guodong Du , ChiYung Yam , Ho-Kin Tang

Computational modeling of charged species transport has enabled the analysis, design, and optimization of a diverse array of electrochemical and electrokinetic devices. These systems are represented by the Poisson-Nernst-Planck (PNP)…

Numerical Analysis · Mathematics 2024-01-02 Sungu Kim , Kumar Saurabh , Makrand A. Khanwale , Ali Mani , Robbyn K. Anand , Baskar Ganapathysubramanian

Ordinary differential equation (ODE) is widely used in modeling biological and physical processes in science. In this article, we propose a new reproducing kernel-based approach for estimation and inference of ODE given noisy observations.…

Methodology · Statistics 2021-10-26 Xiaowu Dai , Lexin Li

The evaluation of Deep Learning models has traditionally focused on criteria such as accuracy, F1 score, and related measures. The increasing availability of high computational power environments allows the creation of deeper and more…

Machine Learning · Computer Science 2023-02-03 Yinlena Xu , Silverio Martínez-Fernández , Matias Martinez , Xavier Franch

Many machine learning solutions are framed as optimization problems which rely on good hyperparameters. Algorithms for tuning these hyperparameters usually assume access to exact solutions to the underlying learning problem, which is…

Machine Learning · Computer Science 2020-11-09 Matthias J. Ehrhardt , Lindon Roberts

It is shown here that Kohn-Sham equations cannot be derived from Hohenberg-Kohn theory without an additional postulate. Assuming that a functional derivative with respect to total electron density exists leads in general to a theory…

Condensed Matter · Physics 2007-05-23 R. K. Nesbet

The energy use of a robot is trajectory-dependent, and thus can be reduced by optimization of the trajectory. Current methods for robot trajectory optimization can reduce energy up to 15\% for fixed start and end points, however their use…

Robotics · Computer Science 2024-11-06 Valentyn Petrichenko , Lisa Lokstein , Gregor Thiele , Kevin Haninger

At any resolution level of wavelet expansions the physical observable of the kinetic energy is represented by an infinite matrix which is ``canonically'' chosen as the projection of the operator $-\Delta/2$ onto the subspace of the given…

Chemical Physics · Physics 2007-07-20 J. Pipek , Sz. Nagy

We formulate a general energy and method for segmentation that is designed to have preference for segmenting the coarse structure over the fine structure of the data, without smoothing across boundaries of regions. The energy is formulated…

Computer Vision and Pattern Recognition · Computer Science 2016-03-28 Ganesh Sundaramoorthi , Naeemullah Khan , Byung-Woo Hong

We propose a direct estimation method for R\'{e}nyi and f-divergence measures based on a new graph theoretical interpretation. Suppose that we are given two sample sets $X$ and $Y$, respectively with $N$ and $M$ samples, where $\eta:=M/N$…

Information Theory · Computer Science 2017-11-22 Morteza Noshad , Kevin R. Moon , Salimeh Yasaei Sekeh , Alfred O. Hero

We propose a new method to obtain kinetic properties of infrequent events from molecular dynamics simulation. The procedure employs a recently introduced variational approach [Valsson and Parrinello, Phys. Rev. Lett. 113, 090601 (2014)] to…

Statistical Mechanics · Physics 2015-08-19 James McCarty , Omar Valsson , Pratyush Tiwary , Michele Parrinello

The average kinetic energy is widely used to characterize temperature in molecular dynamics (MD) simulation. In this letter, the applicability of three types of average kinetic energy as measures of temperature is investigated, i.e., the…

Computational Physics · Physics 2009-12-23 Bin Liu , Ran Xu , Xiaoqiao He

While deep learning-based classification is generally tackled using standardized approaches, a wide variety of techniques are employed for regression. In computer vision, one particularly popular such technique is that of confidence-based…

Machine Learning · Computer Science 2020-07-21 Fredrik K. Gustafsson , Martin Danelljan , Goutam Bhat , Thomas B. Schön

Kinetic energy density functionals (KEDFs) are central to orbital-free density functional theory. Limitations on the spatial derivative dependencies of KEDFs have been claimed from differential virial theorems. We point out a central defect…

Chemical Physics · Physics 2018-03-14 Kai Luo , S. B. Trickey

Computational modeling is an integral part of catalysis research. With it, new methodologies are being developed and implemented to improve the accuracy of simulations while reducing the computational cost. In particular, specific…

Materials Science · Physics 2024-08-28 Alexandre Boucher , Cameron Beevers , Bertrand Gauthier , Alberto Roldan
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