Last modified by michaels on 2022/05/23 22:25
From version 6.1
edited by michaels
on 2020/12/08 12:05
Change comment: There is no comment for this version
To version 13.1
edited by michaels
on 2022/03/22 18:07
Change comment: Migrated property [owner] from class [Collaboratory.Apps.Collab.Code.CollabClass]

Summary

Details

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2 2  (((
3 3  (% class="container" %)
4 4  (((
5 -= My Collab's Extended Title =
5 += Example script for creating openMINDS metadata for TVB data uploads in JSON-LD format =
6 6  
7 -My collab's subtitle
8 -)))
9 -)))
10 10  
11 -(% class="row" %)
12 -(((
13 -(% class="col-xs-12 col-sm-8" %)
14 -(((
15 15  = What can I find here? =
16 16  
17 -* Notice how the table of contents on the right
18 -* is automatically updated
19 -* to hold this page's headers
10 +* a Jupyter Python notebook with code and commentaries for creating openMINDS metadata version 1.0 in JSON-LD format for ingestion of TVB-ready data in KnowledgeGraph
11 +* [[Direct link to notebook>>https://drive.ebrains.eu/f/6ac926e0e2ba4f22ae12/]]
12 +* openMINDS metadata can be directly ingested by EBRAINS' KnowledgeGraph
13 +* it allows to annotate neuroscientific data (e.g. MRI) with metadata that specifies properties of the data in a structured manner and that allows better finding and reuse of the data.
14 +* For more information, please visit the main openMINDS repository: [[https:~~/~~/github.com/HumanBrainProject/openMINDS>>url:https://github.com/HumanBrainProject/openMINDS]]
15 +* Note: openMINDS was updated and this notebook may no longer generate valid openMINDS metadata. The provided notebook was successfully used to create valid metadata sets in openMINDS version 1.0.
20 20  
21 -= Who has access? =
17 += Further information =
22 22  
23 -Describe the audience of this collab.
19 +* openMINDS metadata is required for curation of a data set for publication in EBRAINS' KnowledgeGraph
20 +* (((
21 +This Collab is one of "The Virtual Brain at EBRAINS" cloud services for brain simulation and imaging data processing:
22 +
23 +* Brain network simulation:
24 +[[wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain>>path:/bin/view/Collabs/the-virtual-brain/]]
25 +* Connectome construction:
26 +
27 +[[wiki.ebrains.eu/bin/view/Collabs/tvb-pipeline>>path:/bin/view/Collabs/tvb-pipeline/]]
28 +
29 +* Multiscale co-simulation with spiking networks:
30 +
31 +[[wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale>>path:/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/]]
32 +[[wiki.ebrains.eu/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/>>path:/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/]]
33 +
34 +* High-performance simulation: 
35 +[[wiki.ebrains.eu/bin/view/Collabs/fast-tvb>>path:/bin/view/Collabs/]]
36 +
37 +* Bayesian Virtual Epileptic Patient:
38 +[[wiki.ebrains.eu/bin/view/Collabs/bayesian-virtual-epileptic-patient>>path:/bin/view/Collabs/bayesian-virtual-epileptic-patient/]]
39 +* TVB Mouse Brains:
40 +[[wiki.ebrains.eu/bin/view/Collabs/tvb-mouse-brains>>path:/bin/view/Collabs/tvb-mouse-brains/]]
41 +[[wiki.ebrains.eu/bin/view/Collabs/mouse-stroke-brain-network-model>>path:/bin/view/Collabs/mouse-stroke-brain-network-model/]]
24 24  )))
25 25  
44 +== Authors ==
26 26  
46 +* Roopa Pai
47 +* Michael Schirner
48 +* Lyuba Zehl
49 +* Petra Ritter
50 +
51 +== Contact ==
52 +
53 +Petra Ritter <petra.ritter@charite.de>
54 +)))
55 +)))
56 +
57 +(% class="row" %)
58 +(((
27 27  (% class="col-xs-12 col-sm-4" %)
28 28  (((
29 -{{box title="**Contents**"}}
30 -{{toc/}}
31 -{{/box}}
32 -
33 33  
34 34  )))
35 35  )))
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