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Accurately predicting drug-target binding affinity (DTA) in silico is a key task in drug discovery. Most of the conventional DTA prediction methods are simulation-based, which rely heavily on domain knowledge or the assumption of having the…

Machine Learning · Computer Science 2020-04-06 Xuan Lin

One of the long-standing problems in materials science is how to predict a material's structure and then its properties given only its composition. Experimental characterization of crystal structures has been widely used for structure…

Materials Science · Physics 2022-03-29 Rongzhi Dong , Yong Zhao , Yuqi Song , Nihang Fu , Sadman Sadeed Omee , Sourin Dey , Qinyang Li , Lai Wei , Jianjun Hu

Background: Software is an important windows to offer a variety of complex instrument control and data processing for nuclear magnetic resonance (NMR) spectrometer. NMR software should allow researchers to flexibly implement various…

Quantitative Methods · Quantitative Biology 2021-03-30 Zao Liu , Kan Song , Zhiwei Chen

Predicting materials properties from composition or structure is of great interest to the materials science community. Deep learning has recently garnered considerable interest in materials predictive tasks with low model errors when…

Materials Science · Physics 2021-11-01 Chi Chen , Shyue Ping Ong

The combination of modern scientific computing with electronic structure theory can lead to an unprecedented amount of data amenable to intelligent data analysis for the identification of meaningful, novel, and predictive structure-property…

Automated analyses of the outcome of a simulation have been an important part of atomistic modeling since the early days, addressing the need of linking the behavior of individual atoms and the collective properties that are usually the…

Chemical Physics · Physics 2019-05-22 Michele Ceriotti

The emerging demand for advanced structural and biological materials calls for novel modeling tools that can rapidly yield high-fidelity estimation on materials properties in design cycles. Lattice spring model (LSM), a coarse-grained…

Materials Science · Physics 2022-02-28 Yuan Chiang , Ting-Wai Chiu , Shu-Wei Chang

This paper presents the SPARE C++ library, an open source software tool conceived to build pattern recognition and soft computing systems. The library follows the requirement of the generality: most of the implemented algorithms are able to…

Computer Vision and Pattern Recognition · Computer Science 2015-02-23 Lorenzo Livi , Guido Del Vescovo , Antonello Rizzi , Fabio Massimo Frattale Mascioli

With the rapid development of online advertising and recommendation systems, click-through rate prediction is expected to play an increasingly important role.Recently many DNN-based models which follow a similar Embedding&MLP paradigm have…

Machine Learning · Statistics 2019-05-01 Chenglei Niu , Guojing Zhong , Ying Liu , Yandong Zhang , Yongsheng Sun , Ailong He , Zhaoji Chen

Quantum-accurate computer simulations play a central role in understanding phase-change materials (PCMs) for advanced memory technologies. However, direct quantum-mechanical simulations are necessarily limited to simplified models,…

Materials Science · Physics 2022-09-20 Yuxing Zhou , Wei Zhang , En Ma , Volker L. Deringer

Most machine learning models for materials science rely on descriptors based on materials compositions and structures, even though the chemical bond has been proven to be a valuable concept for predicting materials properties. Over the…

As data science and machine learning methods are taking on an increasingly important role in the materials research community, there is a need for the development of machine learning software tools that are easy to use (even for nonexperts…

Computational Physics · Physics 2020-06-26 Ryan Jacobs , Tam Mayeshiba , Ben Afflerbach , Luke Miles , Max Williams , Matthew Turner , Raphael Finkel , Dane Morgan

The context of this work is the design of a software, called MEMSALab, dedicated to the automatic derivation of multiscale models of arrays of micro- and nanosystems. In this domain a model is a partial differential equation. Multiscale…

Symbolic Computation · Computer Science 2015-03-17 Walid Belkhir , Alain Giorgetti , Michel Lenczner

Deep learning has led to a paradigm shift in artificial intelligence, including web, text and image search, speech recognition, as well as bioinformatics, with growing impact in chemical physics. Machine learning in general and deep…

High-throughput density-functional calculations of solids are extremely time consuming. As an alternative, we here propose a machine learning approach for the fast prediction of solid-state properties. To achieve this, LSDA calculations are…

Materials Science · Physics 2014-05-23 K. T. Schütt , H. Glawe , F. Brockherde , A. Sanna , K. R. Müller , E. K. U. Gross

Component-based software engineering (CBSE) decomposes complex systems into reusable components. Model-driven engineering (MDE) aims to abstract from complexities by lifting abstract models to primary development artifacts. Component and…

Software Engineering · Computer Science 2015-11-02 Lars Hermerschmidt , Katrin Hölldobler , Bernhard Rumpe , Andreas Wortmann

This paper provides the description of a novel, multi-purpose spline library. In accordance with the increasingly diverse modes of usage of splines, it is multi-purpose in the sense that it supports geometry representation, finite element…

Mathematical Software · Computer Science 2020-02-28 Markus Frings , Norbert Hosters , Corinna Müller , Max Spahn , Christoph Susen , Konstantin Key , Stefanie Elgeti

Classical physical modelling with associated numerical simulation (model-based), and prognostic methods based on the analysis of large amounts of data (data-driven) are the two most common methods used for the mapping of complex physical…

Computational Engineering, Finance, and Science · Computer Science 2023-07-11 Derick Nganyu Tanyu , Isabel Michel , Andreas Rademacher , Jörg Kuhnert , Peter Maass

DiffSharp is an algorithmic differentiation or automatic differentiation (AD) library for the .NET ecosystem, which is targeted by the C# and F# languages, among others. The library has been designed with machine learning applications in…

Mathematical Software · Computer Science 2016-11-11 Atılım Güneş Baydin , Barak A. Pearlmutter , Jeffrey Mark Siskind

As computers get faster, researchers -- not hardware or algorithms -- become the bottleneck in scientific discovery. Computational study of colloidal self-assembly is one area that is keenly affected: even after computers generate massive…

Soft Condensed Matter · Physics 2018-03-28 Matthew Spellings , Sharon C Glotzer