Creating the SPM M/EEG interface for Nipype

[georgeoneill]

Title

Creating the SPM M/EEG interface for Nipype

Short description and the goals for the OHBM BrainHack

SPM is an open-source toolbox for analysing fMRI, M/EEG and even PET data, which had its first public release way back in 1991. SPM has been written (primary) in MATLAB, but Python users have been able to exploit a limited set of SPM’s functionality in their Python workflows via Nipype. We seek to widen the scope of what of SPM’s tools can be interfaced with in Nipype (and potentially its successor, Pydra) going forward. For BrainHack, our goal is to create the initial functionality to import, coregister, pre-process and source reconstruct MEG data, a modality currently not supported.

Link to the Project

https://github.com/spm/nipype

Image for the OHBM brainhack website

https://georgeoneill.github.io/img/spypem.png

Project lead

George O'Neill (github: georgeoneill, twitter: g0neill, discord: TBC)

Main Hub

Glasgow

Other Hub covered by the leaders

• Glasgow
• Asia / Pacific
• Europe / Middle East / Africa
• Americas

Skills

Skill	level of expertise required
Python	beginner
SPM	confirmed
Git	1

Recommended tutorials for new contributors

• Set up a brainhack friendly computing environment
• A introduction to Bash
• Python: Writing a script
• Python: Data analysis with Python
• Python: Visualisation
• Machine learning basics
• BIDS
• Machine learning for neuroimaging
• VCS: Using Git and Github
• VCS: Data management with Datalad
• Virtualization
• High Performance Computing: Oracle cloud resource

Good first issues

No response

Twitter summary

Exposing SPM's M/EEG tools to Python via Nipype

Short name for the Discord chat channel (~15 chars)

SPypeM

Please read and follow the OHBM Code of Conduct

• I agree to follow the OHBM Code of Conduct during the hackathon

[djarecka]

Thank you for submitting the project! We have 35 projects right now, woohoo! But that means the projects pitches will have to be short. We will give you tomorrow 2 minutes to pitch your project, you can have one slide or no slides!
If you decide to use a slide, please include the link to the slide here.

And don't worry, you will still have more time to talk about your project during the BrainHack :-)

[georgeoneill]

Thanks, I'll just speak without slides today!