BIDS Prov

[omar-rifai]

Title

BIDS Prov

Short description and the goals for the OHBM BrainHack

Provenance is useful for interpreting and comparing scientific results as well as enabling reusable data and analysis. BIDS prov is a BIDS extension proposal to formalize a provenance framework for BIDS. The framework proposal is based on "w3c prov" and has been adapted for brain imaging. Currently the proposal is drafted in a google doc and contains most of the specifications needed but is lacking some illustrative examples. In particular, examples with BIDS-derivatives outputs using common neuroimaging software such as Freesurfer are challenging because not entirely formalized in the BIDS specification.

The aim of this project is threefold:

• Provide complete examples of the BIDS-derivatives specification for Freesurfer, SPM, FSL, AFNI or your favorite processing tool
• Propose updates to the specs as needed
• Get community feedback on the overall proposal in order to submit a final version

Link to the Project

https://github.com/bids-standard/BEP028_BIDSprov

Image for the OHBM brainhack website

https://raw.githubusercontent.com/bids-standard/BEP028_BIDSprov/master/img/w3c.svg

Project lead

Camille Maumet - Discord: cmaumet#0541; Github: @cmaumet Satrajit Ghosh - Discord: satra#2606; Github @satra Ryan Cali - Github: @rcali21 Dorota Jarecka - Discord dorota#4713; Github @djarecka Chris Markiewicz - Discord: Chris Markiewicz#5926; Github: @effigies Omar El Rifai - Discord: Omar ELR#9936: Github: @omar-rifai Ghislain Vaillant - Discord ghisvail#2434: Github: @ghisvail

Main Hub

Glasgow

Other Hub covered by the leaders

• [X] Glasgow
• [ ] Asia / Pacific
• [X] Europe / Middle East / Africa
• [ ] Americas

Skills

Some experience with BIDS and/or neuroimaging software.

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
• [X] 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

No response

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

BIDS-prov

Please read and follow the OHBM Code of Conduct

• [X] 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 :-)

[omar-rifai]

https://github.com/omar-rifai/ohbm-brainhack/blob/main/brainhack.pdf

[djarecka]

doesn't work