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4	4	(((
5	5	== TVB Image Processing Pipeline ==
6	6
7		-=== [[Web-GUI to configure and start processing on HPC>>https://thevirtualbrain.apps.hbp.eu/||target="_blank"]] ===
	7	+=== [[Web-GUI to configure and start processing on HPC>>https://thevirtualbrain.apps.hbp.eu/||rel="noopener noreferrer" target="_blank"]] ===
8	8
9	9	==== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||rel="noopener noreferrer" target="_blank"]] ====
10	10
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22	22	(((
23	23	== Quick links ==
24	24
	25	+* [[TVB Pipeline Web GUI>>https://thevirtualbrain.apps.hbp.eu/]]
25	25	* [[TVB on EBRAINS (Short Version)>>https://www.youtube.com/watch?v=EETRdGskiWQ&t=2s||rel="noopener noreferrer" target="_blank"]]
26	26	* [[TVB on EBRAINS (Long Version)>>https://www.youtube.com/watch?v=VYhR9RNRIpA&t=2s||rel="noopener noreferrer" target="_blank"]]
27	27	* [[TVB on EBRAINS (Mini Videos)>>url:https://www.youtube.com/playlist?list=PLVtblERyzDeLcVv4BbW3BvmO8D-qVZxKf||rel="noopener noreferrer" target="_blank"]]
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29	29
30	30	== What can I find here? ==
31	31
	33	+* a [[link>>https://thevirtualbrain.apps.hbp.eu/]] to the Web App for using the pipeline via GUI
	34	+* the code underlying the pipeline including the orchestrator that manages processing on the supercomputer
32	32	* an IPython notebook that describes how to
33	33	** use the TVB processing pipeline on one of the associated supercomputers using PyUnicore
34	34	** upload MRI data to the supercomputer
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48	48	== How do I use it? ==
49	49
50	50	* the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
51		-* the containers are executed on supercomputers and operated via the [[web GUI>>https://thevirtualbrain.apps.hbp.eu/]] or via IPython notebooks
	54	+* the containers are executed on supercomputers and operated via the [[web GUI>>https://thevirtualbrain.apps.hbp.eu/]] or via IPython notebooks
52	52	* Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
53	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]]
54	54	* To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.