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Showing 203 results for "software" in Chemistry · Preprint
Chemistry Preprint PDF DOI

Experimentally Accurate Graph Neural Network Predictions of Core-Electron Binding Energies

Adam E. A. Fouda, Joshua Zhou, Rodrigo Ferreira, Patrick Phillips, Valay Agarawal, Bhavnesh Jangid, Jacob J. Wardzala, Rui Ding, Junhong Chen, Nicole Tebaldi, Phay J. Ho, Laura Gagliardi, Linda Young · 2026

Graph neural network architectures are advantageous for predicting core-electron binding energies which depend on local bond environment effects, as the number of message passing layers defines the to…

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Chemistry Preprint PDF DOI

VPT2 Calculations of Vibrational Energies of CH3COOC6H4COOH Done in Seconds on a Laptop Using a Machine Learned Potential

Saikiran Kotaru, Chen Qu, Apurba Nandi, Paul L. Houston, Joel M. Bowman · 2026

The determination of quartic force fields for use in vibrational second-order perturbation (VPT2) calculations, currently available in numerous electronic structure packages, becomes very expensive as…

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Chemistry Preprint PDF DOI

EOM-fpCCSD: An Accurate Alternative to EOM-CCSD for Doubly Excited and Charge-Transfer States

Katharina Boguslawski, Pawe{l} Tecmer · 2026

We introduce a new equation-of-motion coupled-cluster method based on a pair coupled-cluster doubles (pCCD) reference, termed frozen-pair EOM-CCSD (EOM-fpCCSD). This approach combines the computationa…

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Chemistry Preprint PDF DOI

Fidelity of Machine Learned Potentials: Quantitative Assessment for Protonated Oxalate

Chen Qu, Paul L. Houston, Qi Yu, Apurba Nandi, Joel M. Bowman, Valerii Andreichev, Silvan Kaser, Markus Meuwly · 2026

There has been a veritable explosion of methods and software to perform machine-learned regression on datasets of electronic energies and forces to develop high-dimensional machine learned potential e…

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Chemistry Preprint PDF DOI

FermiLink: A Unified Agent Framework for Multidomain Autonomous Scientific Simulations

Gang Meng, Andres Felipe Bocanegra Vargas, Xinwei Ji, Federico Garcia-Gaitan, Felipe Reyes-Osorio, Jalil Varela-Manjarres, Yafei Ren, Mohammadhasan Dinpajooh, Branislav K. Nikolic, Tao E. Li · 2026

Artificial-intelligence (AI) agent frameworks have been developed for autonomous scientific simulations, but most current agent frameworks are tailored to a single or a small set of software packages.…

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Chemistry Preprint PDF DOI

Automating Computational Chemistry Workflows via OpenClaw and Domain-Specific Skills

Mingwei Ding, Chen Huang, Yibo Hu, Yifan Li, Zitian Lu, Xingtai Yu, Duo Zhang, Wenxi Zhai, Tong Zhu, Qiangqiang Gu, Jinzhe Zeng · 2026

Automating multistep computational chemistry tasks remains challenging because reasoning, workflow specification, software execution, and high-performance computing (HPC) execution are often tightly c…

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Chemistry Preprint PDF DOI

sbml4md: A computational platform for System-Bath Modeling via Molecular Dynamics powered by Machine Learning

Kwanghee Park, Seiji Ueno, Yoshitaka Tanimura · 2026

We introduce sbml4md, a newly developed algorithm implemented as a software package to extract parameters of multimode anharmonic Brownian (MAB) models from molecular dynamics (MD) trajectories for si…

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Chemistry Preprint PDF DOI

TENSO: Software Package for Numerically Exact Open Quantum Dynamics Based on Efficient Tree Tensor Network Decomposition of the Hierarchical Equations of Motion

Juan C. Rodriguez Betancourt, Michelle C. Anderson, Luchang Niu, Xinxian Chen, Ignacio Franco · 2026

TENSO is a versatile and powerful open-source software package for numerically exact simulations of the dynamics of quantum systems immersed in structured thermal environments. It is based on a tree t…

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Chemistry Preprint PDF DOI

Reproducible Orchestration of Best Practices for Reaction Path Optimization with the Nudged Elastic Band

Rohit Goswami · 2026

The nudged elastic band (NEB) method is the standard approach for finding minimum energy paths and transition states on potential energy surfaces. Practical NEB calculations require several pre-proces…

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Chemistry Preprint PDF DOI

Extending numerical simulations in SIMPSON: Electron paramagnetic resonance, dynamic nuclear polarisation, propagator splitting, pulse transients, and quadrupolar cross terms

David L. Goodwin, Jose P. Carvalho, Anders B. Nielsen, Nino Wili, Thomas Vosegaard, Zdenek Tosner, Niels Chr. Nielsen · 2026

Aimed at the simulation, design, and interpretation of advanced pulse experiments crossing the boundaries between nuclear magnetic resonance (NMR) and electron paramagnetic resonance (EPR), including …

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Chemistry Preprint PDF DOI

HBAT 2: A Python Package to Analyse Hydrogen Bonds and Other Non-covalent Interactions in Macromolecular Structures

Abhishek Tiwari · 2026

Hydrogen bonds and other non-covalent interactions play a crucial role in maintaining the structural integrity and functionality of biological macromolecules such as proteins and nucleic acids. Accura…

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Chemistry Preprint PDF DOI

fix pimd/langevin: An Efficient Implementation of Path Integral Molecular Dynamics in LAMMPS

Yifan Li, Axel Gomez, Kehan Cai, Chunyi Zhang, Li Fu, Weile Jia, Yotam M. Y. Feldman, Ofir Blumer, Jacob Higer, Barak Hirshberg, Shenzhen Xu, Axel Kohlmeyer, Roberto Car · 2026

Path integral molecular dynamics (PIMD), which maps a quantum particle onto a fictitious classical system of ring polymers and propagates the "beads" of this extended classical system using molecular …

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Chemistry Preprint PDF DOI

El Agente Quntur: A research collaborator agent for quantum chemistry

Juan B. Perez-Sanchez, Yunheng Zou, Jorge A. Campos-Gonzalez-Angulo, Marcel Muller, Ignacio Gustin, Andrew Wang, Han Hao, Tsz Wai Ko, Changhyeok Choi, Eric S. Isbrandt, Mohammad Ghazi Vakili, Hanyong Xu, Chris Crebolder, Varinia Bernales, Alan Aspuru-Guzik · 2026

Quantum chemistry is a foundational enabling tool for the fields of chemistry, materials science, computational biology and others. Despite of its power, the practical application of quantum chemistry…

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Chemistry Preprint PDF DOI

Implementation of Girsanov Reweighting in CP2K

Sascha Jahnigen, Bettina G. Keller · 2026

Dynamical reweighting of path measures is a powerful approach for accurately evaluating slow molecular processes using modified potential energy surfaces used in enhanced sampling methods. Integrating…

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Chemistry Preprint PDF DOI

Topological resolution of conical intersection seams and the coupled cluster bifurcation via mixed Hodge modules

Prasoon Saurabh · 2025

The rigorous description of Conical Intersections (CIs) remains the central challenge of non-adiabatic quantum chemistry. While the ``Yarkony Seam'' -- the $(3N-8)$-dimensional manifold of degeneracy …

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Chemistry Preprint PDF DOI

QMCkl: A Kernel Library for Quantum Monte Carlo Applications

Emiel Slootman, Vijay Gopal Chilkuri, Aurelien Delval, Max Hoffer, Tommaso Gorni, Francois Coppens, Joris van de Nes, Ramon L. Panades-Barrueta, Evgeny Posenitskiy, Abdallah Ammar, Edgar Josue Landinez Borda, Kevin Camus, Oto Kohulak, Emmanuel Giner, Pablo de Oliveira Castro, Cedric Valensi, William Jalby, Claudia Filippi, Anthony Scemama · 2025

Quantum Monte Carlo (QMC) methods deliver highly accurate electronic structure calculations but are computationally intensive. The quantum Monte Carlo kernel library (QMCkl) provides a modular, portab…

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Chemistry Preprint PDF DOI

DoNOF 2.0: A modern Open-Source Electronic Structure Program for Natural Orbital Functionals

Juan Felipe Huan Lew-Yee, Ion Mitxelena, Jorge M. del Campo, and Mario Piris · 2025

In this work, we present the second version of the Donostia Natural Orbital Functional Software, an open-source program for natural orbital functional calculations. The new release incorporates improv…

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Chemistry Preprint PDF DOI

LibppRPA: An Open-Source Library for Particle-Particle Random Phase Approximation

Jincheng Yu, Jiachen Li, Chaoqun Zhang, Tianyu Zhu, Weitao Yang · 2025

The accurate description of electron correlation and excitation energies remains a fundamental challenge in quantum chemistry. The particle-particle random phase approximation (ppRPA) has emerged as a…

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Chemistry Preprint PDF DOI

A Software Package for Generating Robust and Accurate Potentials using the Moment Tensor Potential Framework

Josiah Roberts, Biswas Rijal, Simon Divilov, Jon-Paul Maria, William G. Fahrenholtz, Douglas E. Wolfe, Donald W. Brenner, Stefano Curtarolo, Eva Zurek · 2025

We present the Plan for Robust and Accurate Potentials (PRAPs), a software package for training and using moment tensor potentials (MTPs) in concert with the Machine Learned Interatomic Potentials (ML…

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Chemistry Preprint PDF DOI

Accelerating CCSD(T) on Graphical Processing Units (GPUs)

O. Jonathan Fajen, Joseph E. Kelly, Edward G. Hohenstein, Todd J. Martinez · 2025

Coupled cluster with singles, doubles and perturbative triples (CCSD(T)) often provides ground state correlation energies within "chemical accuracy," but suffers from high computational cost and steep…

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