Welcome to NERDSS Tutorials

Welcome to the official tutorials for NERDSS, NonEquilibrium Reaction-Diffusion Self-assembly Simulator.

NERDSS is a state-of-the-art scientific software designed to help researchers simulate the structure-resolved reaction-diffusion model in cell.

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Getting Started

• Installation Guide
• Basic Usage

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Tutorials

Dive deep into specific features and use-cases with our detailed tutorials.

• Tutorial 1: Get Molecule Geometry from PDB Structure
• Tutorial 2: Clathrin Assembly
• Tutorial 3: Virus Assembly
• Tutorial 4: Data Analysis of Output

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Community & Support

• GitHub Repository
• FAQs
• Johnson Group

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Publications

• Full Publication List

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We ask that you cite: Varga, M., Fu, Y., Loggia, S., Yogurtcu, O.N., & M.E. Johnson NERDSS: a nonequilibrium simulator for multibody self-assembly at the cellular scale. Biophysical Journal 118, P3026-P3040 (2020) in all publications that make use of NERDSS.