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Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics
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NFTsim: Theory and Simulation of Multiscale Neural Field Dynamics
Paula Sanz-Leon1,2, Peter A Robinson1,2, Stuart A Knock1,2
1School of Physics, University of Sydney, Sydney, Australia.
Plos Computational Biology
|August 23, 2018
Summary
NFTsim is a new software package for simulating brain activity across multiple scales using neural field modeling. It enables detailed analysis of neural systems, aiding in understanding brain function and comparing with experimental data.
Area of Science:
- Computational Neuroscience
- Neuroimaging
- Systems Neuroscience
Background:
- Continuum neural field modeling offers a powerful framework for simulating complex brain dynamics.
- Bridging microscopic, mesoscopic, and whole-brain scales is crucial for comprehensive neural system analysis.
- Existing tools may lack the flexibility to integrate multiscale neural processes and facilitate direct comparison with experimental data.
Purpose of the Study:
- To introduce NFTsim, a user-friendly, portable, and documented software package for multiscale neural simulations.
- To provide a unified framework for studying diverse neural systems with multiple populations.
- To enable direct comparison of simulation outputs with analytical and experimental predictions.
Main Methods:
- Development of a C++ based software package, NFTsim, incorporating modular and flexible design.
- Implementation of multiscale modeling capabilities, from cellular interactions to long-range pathways.
- Integration with Matlab routines for efficient quantitative analysis and visualization of simulation results.
Main Results:
- NFTsim facilitates simulations of neural activity at microscopic (cellular interactions), mesoscopic (axonal ranges), and macroscopic (whole-brain pathways) scales.
- The software models key aspects of brain activity, including dissipative wave transmission and synchronous oscillations.
- Outputs are stored in plain text files, allowing for broad offline analysis using various tools.
Conclusions:
- NFTsim provides a versatile and accessible platform for physiologically-based neural field modeling of brain systems.
- The software's multiscale approach supports the modeling of neuroimaging-measurable quantities.
- NFTsim promotes systematic study and direct comparison with experimental and analytical predictions in computational neuroscience.
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