Version 17.1 by michaels on 2020/05/06 14:28
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michaels 7.1 5 = TVB C ~-~- High-speed parallel brain network models =
michaels 1.1 6
michaels 7.1 7 A fast implementation of The Virtual Brain brain network simulator
michaels 10.1 8
michaels 17.1 9 [[Direct link to notebook>>https://drive.ebrains.eu/#my-libs/lib/f5e40b3b-91cb-4671-9178-4d2673ad8ac4]]
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michaels 13.1 19 == What can I find here? ==
michaels 1.1 20
michaels 7.1 21 * an IPython notebook that describes how to
22 ** pull the TVB-C container into one of the associated supercomputers using PyUnicore
23 ** upload model data to the supercomputer
24 ** set up and run simulations
25 ** download simulation results
michaels 8.1 26
27 == How do I use it? ==
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29 * the simulation code is implemented as a Docker container
30 * the container is executed on supercomputers and operated via IPython notebooks
31 * Find the notebook by clicking on "Drive" in the left menu. The notebook is called "TVB_C.ipynb"
32 * To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
33 * Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/]] to edit and run your notebook.
34 * Depending on whether you created a public or a private notebook it will be accessible in either "drive/Shared with all" or "drive/Shared with groups'"
michaels 13.1 35
michaels 14.1 36 == Metadata ==
michaels 13.1 37
michaels 14.1 38 * Partners: Charité Universitätsmedizin Berlin
39 * Developer: Michael Schirner (michael.schirner@charite.de)
40 * Homepage: [[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
michaels 16.1 41 * Github: [[https:~~/~~/github.com/BrainModes/fast_tvb>>url:https://github.com/BrainModes/fast_tvb]]
michaels 14.1 42 * License: GPL3
43 * Version: 1.0
michaels 13.1 44
michaels 15.1 45 == Publications using TVB C ==
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47 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29308767>>url:https://www.ncbi.nlm.nih.gov/pubmed/29308767]]
48 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/32194282>>url:https://www.ncbi.nlm.nih.gov/pubmed/32194282]]
49 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29911173>>url:https://www.ncbi.nlm.nih.gov/pubmed/29911173]]
50 * [[https:~~/~~/www.thieme-connect.com/products/ejournals/html/10.1055/s-0039-3403020>>url:https://www.thieme-connect.com/products/ejournals/html/10.1055/s-0039-3403020]]
51 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=31316116>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=31316116]]
52 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=30035018>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=30035018]]
53 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=27041212>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=27041212]]
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59 {{box title="**Contents**"}}
60 {{toc/}}
61 {{/box}}
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