visualization and analysis of atomistic simulation data with ovito-the open visualization tool (OVITO GmbH)
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OVITO GmbH
visualization and analysis of atomistic simulation data with ovito-the open visualization tool
Visualization And Analysis Of Atomistic Simulation Data With Ovito The Open Visualization Tool, supplied by OVITO GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/visualization+and+analysis+of+atomistic+simulation+data+with+ovito%E2%88%92the+open+visualization+tool/visualization+and+analysis+of+atomistic+simulation+data+with+ovito+the+open+visualization+tool/pm40545751-530-6-15
Average 90 stars, based on 1 article reviews
Visualization And Analysis Of Atomistic Simulation Data With Ovito The Open Visualization Tool, supplied by OVITO GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/visualization+and+analysis+of+atomistic+simulation+data+with+ovito%E2%88%92the+open+visualization+tool/visualization+and+analysis+of+atomistic+simulation+data+with+ovito+the+open+visualization+tool/pm40545751-530-6-15
Average 90 stars, based on 1 article reviews
visualization and analysis of atomistic simulation data with ovito-the open visualization tool - by Bioz Stars,
2026-10
90/100 stars
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other:Article Title: Guide for Nonequilibrium Molecular Dynamics Simulations of Organic Solvent Transport in Nanopores: The Case of 2D MXene Membranes. Article Snippet: Graphics 1996, 14 (1), 33−38. (44) Stukowski, A. Visualization and Analysis of Atomistic Simulation Data with Article Title: Optimizing the Martini 3 Force Field Reveals the Effects of the Intricate Balance between Protein-Water Interaction Strength and Salt Concentration on Biomolecular Condensate Formation. Article Snippet: Jom 2014, 66, 399−407. (55) Stukowski, A. Visualization and analysis of atomistic simulation data with Article Title: Computational Characterization of the Structure, Energy, Strengths, and Fracture Resistances of Symmetric Tilt Grain Boundaries in Ice. Article Snippet: Using an interatomic potential that can capture the tetrahedral configuration of water molecules (H2O) in ice without the need to explicitly track the motion of the O and H atoms, coarse-grained (CG) atomistic simulations are performed here to characterize the structures, energy, cohesive strengths, and fracture resistance of the grain boundaries (GBs) in polycrystalline ice resulting from water freezing.. Taking the symmetric tilt grain boundaries (STGBs) with a tilting axis of ⟨0001⟩ as an example, several main findings from our simulations are (i) the GB energy, EGB, exhibits a strong dependence on the GB misorientation angle, θ.. The classical Read-Shockley model only predicts the EGB − θ relation reasonably well when θ < 20° or θ > 45° but fails when 20° < θ < 45°; (ii) two “valleys” appear in the EGB−θ landscape. Article Title: Superlubric Graphullerene. Article Snippet: Heat Mass Transfer 2023, 206, 123943. (16) Stukowski, A. Visualization and analysis of atomistic simulation data with Article Title: Melting Point and Crystal Growth Kinetics of Metals and Metal Oxides Using Reactive Force Fields: The Case of Aluminum and Alumina. Article Snippet: 2012, 38, 245−259. (44) Stukowski, A. Visualization and analysis of atomistic simulation data with Article Title: Unraveling the Mechanical Behavior of Softwood Secondary Cell Walls through Atomistic Simulations. Article Snippet: 2016, 111, 50−56. (83) Stukowski, A. Visualization and analysis of atomistic simulation data with Article Title: Understanding Correlations in BaZrO<sub>3</sub>: Structure and Dynamics on the Nanoscale Article Snippet: A 1998, 54, 481−485. (28) Stukowski, A. Visualization and analysis of atomistic simulation data with Article Title: RNA Translocation through Protein Nanopores: Interlude of the Molten RNA Globule. Article Snippet: Direct translocation of RNA with secondary structures using single-molecule electrophoresis through protein nanopores shows significant fluctuations in the measured ionic current, in contrast to unstructured single-stranded RNA or DNA.. We developed a multiscale model combining the oxRNA model for RNA with the 3-dimensional Poisson−Nernst−Planck formalism for electric fields within protein pores, aiming to map RNA conformations to ionic currents as RNA translocates through three protein nanopores: α-hemolysin, CsgG, and MspA.. Our findings reveal three distinct stages of translocation (pseudoknot, melting, and molten globule) based on contact maps and current values. |