Changes for page TVB PIPELINE

Last modified by ldomide on 2024/05/20 08:56
From version 13.2
edited by michaels
on 2020/05/06 13:40
Change comment: Added tag [tool,CHARITE,Simulation,tvb,visualisation,open source,analysis,supercomputer,brain model,neuroinformatics,image processing,simulation,the virtual brain]
To version 8.1
edited by michaels
on 2020/05/06 09:19
Change comment: There is no comment for this version

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1 -tool|CHARITE|Simulation|tvb|visualisation|open source|analysis|supercomputer|brain model|neuroinformatics|image processing|the virtual brain
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5 5  = From MRI to Functional and Structural Connectivity =
6 6  
7 7  Neuroimaging data preprocessing pipeline
8 -
9 -(% style="text-align:center" %)
10 -[[image:8d975cf4-13ec-4a6d-9fd9-064bd1fac7b0.jpeg]]
11 -
12 -== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||target="_blank"]] ==
13 13  )))
14 14  )))
15 15  
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25 25  ** set up and run the pipeline
26 26  ** download processing results
27 27  
23 +
28 28  == How do I use it? ==
29 29  
30 30  * the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
31 31  * the containers are executed on supercomputers and operated via IPython notebooks
32 32  * Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
33 -* Direct link to notebook: [[https:~~/~~/drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks>>url:https://drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks]]
34 34  * To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
35 -* Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/||rel="noopener noreferrer" target="_blank"]] to edit and run your notebook.
30 +* Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/]] to edit and run your notebook.
36 36  * 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'"
37 37  )))
38 38  
8d975cf4-13ec-4a6d-9fd9-064bd1fac7b0.jpeg
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1 -XWiki.michaels
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TVB PIPELINE