The first step for the polymer simulation is the 'Modeling.' The modeling is "Preparing information on which systems to perform simulations." In other words, modeling is 'Creating a small atomic system that can represent the real bulk system.' of course, it is ideal to replicate the actual experimental environment. But in an atomic-scale simulation environment, such attempts run into various limitations.
In many atomic-scale simulation codes such as LAMMPS, do the structural modeling under 'periodic boundary condition' in order to simulate an extensive system with a small computational amount. Therefore, the modeled structure in the 'Modeling module' is considered to be infinitely repeated with periodicity in the 'Simulation module' in the MatSQ environment.
👉 Read more: https://www.materialssquare.com/blog/matsq-tip-lammps-polymer-md-modeling-en
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[Materials Square] How to Model a Polymer System for Molecular Dynamics Simulation | NatokHD