Empowering materials science with VASPKIT: a toolkit for enhanced simulation and analysis.

IF 13.1 1区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS
Wen-Tong Geng, Ya-Chao Liu, Nan Xu, Gang Tang, Yoshiyuki Kawazoe, Vei Wang
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Abstract

Driven by rapid advances in high-performance supercomputing, computational materials science has emerged as a powerful approach for exploring, designing, and predicting material properties at the atomic and molecular scales. Among the various computational tools developed in this field, the Vienna Ab initio Simulation Package (VASP) stands out as a widely adopted and highly versatile platform for performing first-principles density functional theory (DFT) calculations. VASP is widely used to explore electronic structures, phonon behavior, magnetic properties, thermodynamics and catalytic mechanisms across a diverse range of materials systems. Despite its robust capabilities, utilizing VASP requires expertise in setting up simulations and analyzing results, which can be time consuming and technically challenging. To address these barriers, VASPKIT was developed as a comprehensive toolkit to simplify the workflow for VASP users. VASPKIT streamlines both preprocessing and postprocessing tasks, enabling users to generate essential input files based on customizable parameters and automate computational workflows. The postprocessing features of VASPKIT allow for efficient analysis of electronic, mechanical, optical and catalytic properties, thereby substantially reducing the need for advanced programming expertise. This protocol provides a detailed guide to using VASPKIT, including practical examples to demonstrate its versatility and utility in conducting and analyzing DFT calculations. For instance, the computation of elastic constants, electronic band structures and density of states for a graphene system can typically be completed within half an hour, depending on the computational resources available. By offering step-by-step guidance, this protocol aims to further expand the accessibility and impact of VASPKIT in the field of computational materials science.

赋予材料科学与VASPKIT:一个工具包增强模拟和分析。
在高性能超级计算快速发展的推动下,计算材料科学已经成为在原子和分子尺度上探索、设计和预测材料特性的一种强大方法。在该领域开发的各种计算工具中,维也纳从头算模拟包(VASP)作为执行第一性原理密度泛函理论(DFT)计算的广泛采用和高度通用的平台脱颖而出。VASP被广泛用于探索各种材料系统的电子结构、声子行为、磁性、热力学和催化机制。尽管具有强大的功能,但利用VASP需要在设置模拟和分析结果方面的专业知识,这可能是耗时且具有技术挑战性的。为了解决这些障碍,VASPKIT被开发为一个全面的工具包,以简化VASP用户的工作流程。VASPKIT简化了预处理和后处理任务,使用户能够根据可定制的参数生成必要的输入文件,并自动计算工作流程。VASPKIT的后处理功能允许对电子,机械,光学和催化特性进行有效的分析,从而大大减少了对高级编程专业知识的需求。该协议提供了使用VASPKIT的详细指南,包括实际示例来演示其在执行和分析DFT计算中的通用性和实用性。例如,根据可用的计算资源,石墨烯系统的弹性常数、电子能带结构和态密度的计算通常可以在半小时内完成。通过提供逐步的指导,本协议旨在进一步扩大VASPKIT在计算材料科学领域的可访问性和影响。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Nature Protocols
Nature Protocols 生物-生化研究方法
CiteScore
29.10
自引率
0.70%
发文量
128
审稿时长
4 months
期刊介绍: Nature Protocols focuses on publishing protocols used to address significant biological and biomedical science research questions, including methods grounded in physics and chemistry with practical applications to biological problems. The journal caters to a primary audience of research scientists and, as such, exclusively publishes protocols with research applications. Protocols primarily aimed at influencing patient management and treatment decisions are not featured. The specific techniques covered encompass a wide range, including but not limited to: Biochemistry, Cell biology, Cell culture, Chemical modification, Computational biology, Developmental biology, Epigenomics, Genetic analysis, Genetic modification, Genomics, Imaging, Immunology, Isolation, purification, and separation, Lipidomics, Metabolomics, Microbiology, Model organisms, Nanotechnology, Neuroscience, Nucleic-acid-based molecular biology, Pharmacology, Plant biology, Protein analysis, Proteomics, Spectroscopy, Structural biology, Synthetic chemistry, Tissue culture, Toxicology, and Virology.
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