Version 14.1 by mhashemi on 2020/06/25 13:19
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1 = Bayesian Virtual Epileptic Patient (BVEP) =
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4 Bayesian Virtual Epileptic Patient (BVEP): a probabilistic framework designed to infer the spatial map of epileptogenicity in a personalized large-scale brain model of epilepsy spread by PPLs using No-U-Turn Sam- pler (NUTS) and Automatic Differentiation Variational Inference (ADVI).
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7 Installation:
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9 For simulation using TVB:
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11 [[https:~~/~~/www.thevirtualbrain.org/tvb/zwei>>url:https://www.thevirtualbrain.org/tvb/zwei]]
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13 For inference using Stan:
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15 [[https:~~/~~/mc-stan.org/>>url:https://mc-stan.org/]]
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17 For inference using PyMC3:
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19 [[https:~~/~~/docs.pymc.io/>>url:https://docs.pymc.io/]]
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23 Notebooks:
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25 Bayesian inference of 2D Epileptor model:
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27 [[https:~~/~~/lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb]]
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29 [[https:~~/~~/lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/>>url:https://lab.ebrains.eu/user-redirect/lab/tree/drive/Shared with all/TVB Mouse Brains]][[Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb]]
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31 Cross-validation and hypothesis inference in 2D Epileptor model:
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33 [[https:~~/~~/lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/EpileptorInferHyposPrior.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/EpileptorInferHyposPrior.ipynb]]
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35 Bayesian inference of VEP whole-brain network model:
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37 [[https:~~/~~/lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_noncen_pymc3_patient1.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_noncen_pymc3_patient1.ipynb]]