Version 19.1 by michaels on 2020/05/06 15:08
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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 19.1 38 |=(((
39 |=Category|tool
40 |=Tags|(((
41 * [[brain-network-model>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
42 * [[TVB>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
43 * [[high-performance>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
44 * [[parallel>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
45 * [[HPC>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
46 * [[supercomputer>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
47 * [[brain-simulation>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
48 * [[connectome>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
49 * [[functional-connectivity>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
50 * [[The-Virtual-Brain>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
51 )))
michaels 18.1 52 |=Partners|(((
53 * Charité Universitätsmedizin Berlin [[CHARITE>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
54 )))
55 |=Maintainers|(((
56 * [[Petra Ritter>>path:mailto:petra.ritter@charite.de]]
michaels 19.1 57 * [[Michael Schirner>>path:mailto:michael.schirner@charite.de]]
michaels 18.1 58 )))
michaels 19.1 59 |=Homepage|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
60 |=Documentation|[[https:~~/~~/collab.humanbrainproject.eu/#/collab/65304/nav/444404>>url:https://collab.humanbrainproject.eu/#/collab/65304/nav/444404]]
61 |=Support|[[michael.schirner@charite.de>>path:mailto:michael.schirner@charite.de]]
62 |=Source Code|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
63 |=Download Page|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
64 |=License|GPL3
michaels 18.1 65 |=Current Version|1.0
66 |=All Versions|(((
67 * 1.0
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michaels 13.1 70
michaels 15.1 71 == Publications using TVB C ==
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73 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29308767>>url:https://www.ncbi.nlm.nih.gov/pubmed/29308767]]
74 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/32194282>>url:https://www.ncbi.nlm.nih.gov/pubmed/32194282]]
75 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29911173>>url:https://www.ncbi.nlm.nih.gov/pubmed/29911173]]
76 * [[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]]
77 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=31316116>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=31316116]]
78 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=30035018>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=30035018]]
79 * [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=27041212>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=27041212]]
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85 {{box title="**Contents**"}}
86 {{toc/}}
87 {{/box}}
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