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These are the slides from my Biomag 2018 talk in the panel on open science.


Denis A. Engemann

August 30, 2018


  1. Lessons learned from processing the Human Connectome MEG data Denis

    A. Engemann denis-alexander.engemann@inria.fr www.denis-engemann.de github: dengemann Biomag 2018 Philadelphia
  2. Q: Why would you care about a Python reader for

    the HCP MEG data?
  3. Bridging resources • Dataset provider: make sure the data can

    be used with any tool. • Software provider: make sure the software can be used with any dataset • Researcher: use a baseline dataset in a most unconstrained way. Enabling cross-toolbox, cross- methods, cross-site comparisons
  4. Example 1: validation of power envelope connectivity Soon in CTF

    Brainstorm Hipp et al. Nat Neuro 2012 CAMCAN HCP
  5. Example 2: Benchmark against new MNE family solvers Challenge me!

  6. Example 3: compare machine learning tools

  7. Challenges we solved together • The ethics protocol may not

    allow sharing all aspects of the data • Derivative data may be stored differently from what your tools expects (anatomy, coordinate systems) • Knowing which information is which file and how to get the missing bits and pieces + +
  8. Programmatic access to HCP data https:/mne-tools.github.io/mne-hcp

  9. …/mne-hcp/auto_tutorials/index.html Add your example! Run all analyses supported by MNE

    on HCP data
  10. Add your example! Load the evoked responses

  11. Add your example! Get the forward model and compute the

    noise covariance
  12. Add your example! Compute the inverse solution

  13. Add your example! Be fascinated by visual cortex activity

  14. The lessons learned • Principle of charity: there can be

    good reasons why some data are not easily available. • Work together with data providers • Document how a data resource can be used with your software • Mind your community’s software eco-system • Talk to each other!
  15. Thank you • Robert Oostenveld • Jan-Mathijs Schoffelen • Giorgos

    Michalareas • Eric Larson • Alexandre Gramfort • Mainak Jas • Virginie van Wassenhove