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5	5	= From MRI to Functional and Structural Connectivity =
6	6
7	7	Neuroimaging data preprocessing pipeline
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	10	+[[image:8d975cf4-13ec-4a6d-9fd9-064bd1fac7b0.jpeg]]
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	12	+== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||target="_blank"]] ==
8	8	)))
9	9	)))
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20	20	** set up and run the pipeline
21	21	** download processing results
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23		-
24	24	== How do I use it? ==
25	25
26	26	* the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
27	27	* the containers are executed on supercomputers and operated via IPython notebooks
28	28	* 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]]
29	29	* To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
30		-* Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/]] to edit and run your notebook.
	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.
31	31	* 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'"
32	32	)))
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8d975cf4-13ec-4a6d-9fd9-064bd1fac7b0.jpeg

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	1	+XWiki.michaels

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