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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
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	32	+== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||rel="noopener noreferrer" target="_blank"]] ==
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25	25	* the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
26	26	* the containers are executed on supercomputers and operated via IPython notebooks
27	27	* Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
	53	+* 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]]
28	28	* To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
29		-* Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/||rel=" noopener noreferrer" target="_blank"]] to edit and run your notebook.
	55	+* 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	30	* 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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