Wiki source code of INCF Neuroinformatics Assembly 2022 training workshop. Enabling multi-scale data integration: Turning data to knowledge.
Last modified by dionperd on 2024/04/08 12:54
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26.1 | 1 | == == |
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15.3 | 3 | [[image:https://www.brainsimulation.org/bsw/img/9812/text_illustration_maxi@2x||alt="INCF assembly 2022 banner"]] |
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15.3 | 6 | (% style="line-height:1.3800000000000001" %) |
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18.1 | 7 | (% style="color:#000000; font-family:Arial; font-size:11pt; font-style:normal; font-variant:normal; font-weight:700; text-decoration:none; white-space:pre-wrap" %)**Title: Enabling multilevel data integration: Turning data to knowledge** |
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15.3 | 9 | (% style="line-height:1.3800000000000001" %) |
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18.1 | 10 | (% style="color:#000000; font-family:Arial; font-size:11pt; font-style:normal; font-variant:normal; font-weight:700; text-decoration:none; white-space:pre-wrap" %)**Chair: Hosted by NFDI-Neuro ** |
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15.3 | 12 | (% style="line-height:1.3800000000000001" %) |
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18.1 | 13 | (% style="color:#000000; font-family:Arial; font-size:11pt; font-style:normal; font-variant:normal; font-weight:700; text-decoration:none; white-space:pre-wrap" %)**Date: Sept-15, 2022** |
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18.1 | 16 | (% style="color:#000000; font-family:Arial; font-size:11pt; font-style:normal; font-variant:normal; font-weight:700; text-decoration:none; white-space:pre-wrap" %)**Location: Online** |
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18.1 | 19 | (% style="color:#000000; font-family:Arial; font-size:11pt; font-style:normal; font-variant:normal; font-weight:700; text-decoration:none; white-space:pre-wrap" %)**Link: **(%%)[[(% style="font-size:12pt; font-variant:normal; white-space:pre-wrap" %)__https:~~/~~/neuroinformatics.incf.org/2022/program__>>url:https://neuroinformatics.incf.org/2022/program||style="text-decoration:none"]] |
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28.1 | 22 | (% class="wikigeneratedid" id="HTVB-multiscaleJupyterHubappsarenowdeprecated21See:A0https:2F2Fwiki.ebrains.eu2Fbin2Fview2FCollabs2Fthe-virtual-brain-multiscale2FA0abouthowtorunTVB-multiscale28TVB-NEST2CTVB-NetPyNE28NEURON292CTVB-ANNarchy29onEBRAINS21" %) |
| 23 | (% style="color:#e74c3c" %)**TVB-multiscale JupyterHub apps are now deprecated! See:**(%%) **[[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale/>>url:https://wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale/]] (% style="color:#e74c3c" %)about how to run TVB-multiscale (TVB-NEST, TVB-NetPyNE (NEURON), TVB-ANNarchy) on EBRAINS!(%%)** | ||
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7.1 | 26 | === What can I find here? === |
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23.1 | 28 | [[Presentation slides>>attach:2022-09-15_TVB-multiscale_INCF.pdf]] and [[hands-on materials>>attach:WilsonCowan.ipynb]] for the sessions: |
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2.1 | 29 | |
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18.1 | 30 | * 14:40 - 15:15 (CEST): Multi-scale co-simulation of a brain model by Dionysios Perdikis (Charité) |
| 31 | * 15:15 - 16:00 (CEST): Hands-on: Setup a multiscale co-simulation and tune the interface between scales by Dionysios Perdikis (Charité) | ||
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15.3 | 32 | |
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8.1 | 33 | === Guide to run the use-case notebook === |
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26.1 | 35 | 1. Run the EBRAINS TVB-Multiscale app by browsing to [[https:~~/~~/tvb-multiscale.apps.hbp.eu/>>https://tvb-multiscale.apps.hbp.eu/]] and logging in with your EBRAINS account. (The first time you log-in, you might need to try several times by refreshing the page, until it works for you!) |
| 36 | 1. Navigate to "TVB-Multiscale-Examples/documented_example_notebooks" folder, and upload the [[WilsonCowan.ipynb notebook>>attach:WilsonCowan.ipynb]], to the "Contributed-Notebooks" folder, which offers user-specific persistent storage. | ||
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2.1 | 37 | 1. Run the WilsonCowan.ipynb notebook. |
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26.1 | 39 | == == |