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Thalamic neural mass model and Exploration tools

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@caglorithm caglorithm released this 08 Apr 19:57
· 762 commits to master since this release
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We're happy to introduce a few new features in this release!

  • 🧠 New model: Thalamus model ThalamicMassModel (thanks to @jajcayn)
    • Model by Costa et al. 2016, PLOS Computational Biology
  • ⚒ New tools for parameter exploration: explorationUtils.py aka eu
    • Postprocessing of exploration results using eu.processExplorationResults()
    • Find parameters of explored simulations using eu.findCloseResults()
    • Plot exploration results via eu.plotExplorationResults() (see example image below)
  • 🧪 Custom transformation of the inputs to the BOLDModel.
    • This is particularly handy for phenomenological models (such as FHNModel, HopfModel and WCModel) which do not produce firing rate outputs with units in Hz.
  • 🔬Improvements
    • Models can now generate random initial conditions using model.randomICs()
    • model.params['bold'] = True forces BOLD simulation
    • BoxSearch class: search.run() passes arguments to model.run()
    • BOLD output time array renamed to t_BOLD

🖼 Example image generated by eu.plotExplorationResults(): Exploration results of a brain network of FHNModel nodes using the hcp dataset.
exploration-fhn-fc