User’s Guide¶
This document provides the most basic tutorial to get the new user started working with TheVirtualBrain. As TheVirtualBrain is updated from time to time, please check for updates on our web site: http://www.thevirtualbrain.org.
- Overview of TheVirtualBrain
- Installing the Application
- Configuring TVB
- Web User Interface of TheVirtualBrain
- User
- Project
- Simulator
- Simulation History
- Configure a Simulation
- Display Simulation Results
- Simple Visualizers
- Group Display
- Analyzers + Visualizers
- Covariance Visualizer
- Cross Coherence Visualizer
- Complex Coherence Visualizer
- Cross Correlation Visualizer
- Pearson Coefficients Visualizer
- Fourier Spectrum Visualizer
- Principal Component Visualizer
- Independent Component Visualizer
- Wavelet Spectrogram Visualizer
- Matrix Visualizer
- Connectivity Edge Bundle Visualizer
- Pearson Edge Bundle Visualizer
- Analyze
- Cross-correlation of nodes
- Fourier Spectral Analysis
- TimeSeries Metrics
- Cross coherence of nodes
- Complex coherence of nodes
- Temporal covariance of nodes
- Principal Component Analysis (PCA)
- Independent Component Analysis (ICA)
- Continuous Wavelet Transform (CWT)
- Brain Connectivity Toolbox Analyzers
- Functional Connectivity Dynamics metric
- Stimulus
- Connectivity
- Console Interfaces of TheVirtualBrain
- A Description of a Complete Dataset
- TheVirtualBrain Data Formats
- Exchange Projects
- Export Data
- Import Data
Copyright notice¶
Note
TheVirtualBrain is a brain-simulation software. See also http://www.thevirtualbrain.org
© 2012-2024, Baycrest Centre for Geriatric Care (“Baycrest”) and others
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
CITATION¶
When using The Virtual Brain for scientific publications, please cite it as follows:
Paula Sanz Leon, Stuart A. Knock, M. Marmaduke Woodman, Lia Domide, Jochen Mersmann, Anthony R. McIntosh, Viktor Jirsa (2013) The Virtual Brain: a simulator of primate brain network dynamics. Frontiers in Neuroinformatics (7:10. doi: 10.3389/fninf.2013.00010)
If you’re using The Virtual Brain v2.2 or higher, please cite additionally this paper:
M. Schirner, L. Domide, D. Perdikis, P. Triebkorn, L. Stefanovski, R. Pai, P. Popa, B. Valean, J. Palmer, C. Langford, A. Blickensdörfer, M. van der Vlag, S. Diaz-Pier, A. Peyser, W. Klijn, D. Pleiter, A. Nahm, O. Schmid, M. Woodman, L. Zehl, J. Fousek, S. Petkoski, L. Kusch, M. Hashemi, D. Marinazzo, J.-F. Mangin, A. Flöel, S. Akintoye, B. C. Stahl, M. Cepic, E. Johnson, G. Deco, A. R. McIntosh, C. C. Hilgetag, M. Morgan, B. Schuller, A. Upton, C. McMurtrie, T. Dickscheid, J. G. Bjaalie, K. Amunts, J. Mersmann, V. Jirsa, P. Ritter (2022) Brain simulation as a cloud service: The Virtual Brain on EBRAINS NeuroImage 2022, doi.org/10.1016/j.neuroimage.2022.118973