Last modified by mhashemi on 2022/06/21 12:37
From version 7.1
edited by mhashemi
on 2020/06/12 18:52
Change comment: There is no comment for this version
To version 25.1
edited by mhashemi
on 2022/06/21 12:32
Change comment: There is no comment for this version

Summary

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5 -= {{jupyterlink}}https://lab.ebrains.eu/user/mhashemi/lab/tree/drive/Shared%20with%20groups/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_noncen_pymc3_patient1.ipynb{{/jupyterlink}}My Collab's Extended Title =
1 += Bayesian Virtual Epileptic Patient (BVEP) =
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7 -My collab's subtitle
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15 -= What can I find here? =
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 Sampler (NUTS) and Automatic Differentiation Variational Inference (ADVI), and also now using the state-of-the-art deep learning algorithms for conditional density estimation in simulation-based-inference (SBI) framework.
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21 -= Who has access? =
7 +Installation:
22 22  
23 -Describe the audience of this collab.
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9 +For simulation using TVB:
25 25  
11 +[[https:~~/~~/www.thevirtualbrain.org/tvb/zwei>>url:https://www.thevirtualbrain.org/tvb/zwei]]
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29 -{{box title="**Contents**"}}
30 -{{toc/}}
31 -{{/box}}
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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21 +
22 +For inference using SBI:
23 +
24 +[[https:~~/~~/www.mackelab.org/sbi/>>https://www.mackelab.org/sbi/]]
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26 +
27 +Notebooks:
28 +
29 +Bayesian inference of 2D Epileptor model:
30 +
31 +[[https:~~/~~/lab.ebrains.eu/user/user-redirect/lab/tree/drive/Shared%20with%20all/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_noncen_pymc3_patient1.ipynb>>url:https://lab.ebrains.eu/user/user-redirect/lab/tree/drive/Shared with all/Bayesian Virtual Epileptic Patient/BVEP_noncen_pymc3_patient1.ipynb]]
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33 +
34 +Cross-validation and hypothesis inference in 2D Epileptor model:
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36 +[[https:~~/~~/lab.ebrains.eu/user/user-redirectm/lab/tree/drive/Shared%20with%20all/Bayesian%20Virtual%20Epileptic%20Patient/EpileptorInferHyposPrior.ipynb>>url:https://lab.ebrains.eu/user/user-redirectm/lab/tree/drive/Shared with all/Bayesian Virtual Epileptic Patient/EpileptorInferHyposPrior.ipynb]]
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38 +
39 +Bayesian inference of VEP whole-brain network model:
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41 +
42 +shared/Bayesian Virtual Epileptic Patient/BVEP_ode_sbi_sourcelevel_patient1_savesim_v18.ipynb
43 +
44 +[[https:~~/~~/lab.ch.ebrains.eu/hub/user-redirect/lab/tree/shared/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_sde_sbi_maf_seeg_GrExp_patient1.ipynb>>https://lab.ch.ebrains.eu/hub/user-redirect/lab/tree/shared/Bayesian%20Virtual%20Epileptic%20Patient/BVEP_sde_sbi_maf_seeg_GrExp_patient1.ipynb]]
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47 +SBI-VEP:
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