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3.0.Examples

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Xuan Mai PHAM edited this page Mar 24, 2025 · 9 revisions

Within this section, you will find a set of pipeline examples that showcase how you can analyze large datasets using CBRAIN where all the computational process is happening. More use cases can be find directly on the CBRAIN documentation page.

3.1. Analyses of structural data

3.2. Cellranger Count

3.3. scrNAbox

3.4. BraTSPipeline

Questions or Issues?

For any questions or issues related to the registration process for accessing the UK Biobank data through the McGill agreement, please contact the NeuroHub team by email at [email protected].

For any questions or issues specifically related to accessing the NeuroHub portal or using any of the NeuroHub features and functionalities, please contact the NeuroHub team by email at [email protected].

Table of Contents

1. Getting started

  1. Get a NeuroHub account
  2. Obtain UKBiobank access

2. Using NeuroHub

  1. Available Tools and Datasets
  2. Access NeuroHub
  3. Creating a project
  4. LORIS Data Query TooL(DQT)
  5. Jupyter Notebooks in NeuroHub
  6. Messaging in NeuroHub
  7. Accessing the Canadian Open Neuroscience Platform(CONP) datasets
  8. Accessing the HCP(Human Connectome Project) datasets
  9. Accessing the UK Biobank dataset
  10. Accessing the ABCD dataset
  11. Accessing the OpenNeuro dataset

3. Examples

  1. Analyses of structural data
  2. Cellranger Count
  3. scrNAbox
  4. BraTSPipeline

4. Supplementary Information

5. Direct access to the UK Biobank data

  1. Available Data
  2. An example of extracting ICD codes from UK Biobank tabular data
  3. Accessing Imaging Data
  4. Processing Data directly on Rorqual

6. NeuroHub and Machine Learning

7. Acknowledging NeuroHub

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