Wiki source code of TVB PIPELINE
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| 5 | = From MRI to Functional and Structural Connectivity = | ||
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| 7 | Neuroimaging data preprocessing pipeline | ||
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| 15 | == What can I find here? == | ||
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| 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 | ||
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| 23 | == How do I use it? == | ||
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| 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 | * 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. | ||
| 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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| 36 | {{box title="**Contents**"}} | ||
| 37 | {{toc/}} | ||
| 38 | {{/box}} | ||
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