Last modified by michaels on 2022/05/23 22:25
From version 5.1
edited by michaels
on 2020/12/08 12:05
Change comment: There is no comment for this version
To version 7.1
edited by michaels
on 2020/12/08 12:06
Change comment: There is no comment for this version

Summary

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2 2  (((
3 3  (% class="container" %)
4 4  (((
5 -= My Collab's Extended Title =
5 += An example script that creates openMINDS metadata for TVB data uploads =
6 6  
7 -My collab's subtitle
8 -)))
9 -)))
7 +in JSON-LD format
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
11 +* 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
12 +* [[Direct link to notebook>>url:https://lab.ebrains.eu/user-redirect/lab/tree/drive/Shared%20with%20groups/openMINDS%20metadata/create_openMINDS_metadata.ipynb]]
13 +* openMINDS metadata can be directly ingested by EBRAINS' KnowledgeGraph
14 +* 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.
15 +* For more information, please visit the main openMINDS repository: [[https:~~/~~/github.com/HumanBrainProject/openMINDS>>url:https://github.com/HumanBrainProject/openMINDS]]
16 +* Note: openMINDS is under ongoing development. The provided notebook was successfully used to create valid metadata sets, however, this may change if the standard changes.
20 20  
21 -= Who has access? =
18 += Further information =
22 22  
23 -Describe the audience of this collab.
20 +* openMINDS metadata is required for curation of a data set for publication in EBRAINS' KnowledgeGraph
21 +* (((
22 +This Collab is one of "The Virtual Brain at EBRAINS" cloud services for brain simulation and imaging data processing:
23 +
24 +* Brain network simulation:
25 +[[wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain>>path:/bin/view/Collabs/the-virtual-brain/]]
26 +*
27 +
28 +Connectome construction:
29 +[[wiki.ebrains.eu/bin/view/Collabs/tvb-pipeline>>path:/bin/view/Collabs/tvb-pipeline/]]
30 +
31 +*
32 +
33 +Multiscale co-simulation with spiking networks: 
34 +[[wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale>>path:/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/]]
35 +[[wiki.ebrains.eu/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/>>path:/bin/view/Collabs/co-simulation-tvb-and-nest-high-computer/]]
36 +
37 +* High-performance simulation: 
38 +[[wiki.ebrains.eu/bin/view/Collabs/fast-tvb>>path:/bin/view/Collabs/]]
39 +
40 +* Bayesian Virtual Epileptic Patient:
41 +[[wiki.ebrains.eu/bin/view/Collabs/bayesian-virtual-epileptic-patient>>path:/bin/view/Collabs/bayesian-virtual-epileptic-patient/]]
42 +* TVB Mouse Brains:
43 +[[wiki.ebrains.eu/bin/view/Collabs/tvb-mouse-brains>>path:/bin/view/Collabs/tvb-mouse-brains/]]
44 +[[wiki.ebrains.eu/bin/view/Collabs/mouse-stroke-brain-network-model>>path:/bin/view/Collabs/mouse-stroke-brain-network-model/]]
24 24  )))
25 25  
47 +== Authors ==
26 26  
49 +* Roopa Pai
50 +* Michael Schirner
51 +* Lyuba Zehl
52 +* Petra Ritter
53 +
54 +== Contact ==
55 +
56 +Petra Ritter <petra.ritter@charite.de>
57 +)))
58 +)))
59 +
60 +(% class="row" %)
61 +(((
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28 28  (((
29 -{{box title="**Contents**"}}
30 -{{toc/}}
31 -{{/box}}
32 -
33 33  
34 34  )))
35 35  )))
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