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2	2	(((
3	3	(% class="container" %)
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5		-= My Collab's Extended Title =
	5	+= From MRI to Functional and Structural Connectivity =
6	6
7		-My collab's subtitle
	7	+Neuroimaging data preprocessing pipeline
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9	9	)))
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12	12	(((
13	13	(% class="col-xs-12 col-sm-8" %)
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15		-= What can I find here? =
	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
	17	+* an IPython notebook that describes how to
	18	+** use the TVB pipeline on one of the associated supercomputers using PyUnicore
	19	+** upload model data to the supercomputer
	20	+** set up and run the pipeline
	21	+** download processing results
20	20
21		-= Who has access? =
	23	+== How do I use it? ==
22	22
23		-Describe the audience of this collab.
	25	+* the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
	26	+* the containers are executed on supercomputers and operated via IPython notebooks
	27	+* Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
	28	+* 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	+* 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/||rel="noopener noreferrer" target="_blank"]] to edit and run your notebook.
	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'"
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