Last modified by mhashemi on 2022/06/21 12:37
From version 8.1
edited by mhashemi
on 2020/06/12 18:53
Change comment: There is no comment for this version
To version 12.1
edited by mhashemi
on 2020/06/25 12:43
Change comment: There is no comment for this version

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1 -[[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]]
1 += Bayesian Virtual Epileptic Patient (BVEP) =
2 +
3 +
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).
5 +
6 +
7 +Installation:
8 +
9 +For simulation using TVB:
10 +
11 +[[https:~~/~~/www.thevirtualbrain.org/tvb/zwei>>url:https://www.thevirtualbrain.org/tvb/zwei]]
12 +
13 +For inference using Stan:
14 +
15 +[[https:~~/~~/mc-stan.org/>>url:https://mc-stan.org/]]
16 +
17 +For inference using PyMC3:
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19 +[[https:~~/~~/docs.pymc.io/>>url:https://docs.pymc.io/]]
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21 +
22 +
23 +Notebooks:
24 +
25 +Bayesian inference of 2D Epileptor model:
26 +
27 +[[https:~~/~~/lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/>>url:https://lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/TVB%20Mouse%20Brains]][[Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/FittingEpileptor2D.ipynb]]
28 +
29 +Cross-validation and hypothesis inference in 2D Epileptor model:
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31 +[[https:~~/~~/lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/>>url:https://lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/TVB%20Mouse%20Brains]][[Bayesian%20Virtual%20Epileptic%20Patient/EpileptorInferHyposPrior.ipynb>>https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/EpileptorInferHyposPrior.ipynb]]
32 +
33 +Bayesian inference of VEP whole-brain network model:
34 +
35 +[[https:~~/~~/lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/>>url:https://lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20all/TVB%20Mouse%20Brains]][[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]]