The BIDS connectivity project - current state and next steps of the BEPs

PeerHerholz commented 1 year ago

Title

Short description and the goals for the OHBM BrainHack

Besides BIDS' success, expansion, and description of multiple data modalities, gaps still exist in developing the standard to effectively support the process of scientific results reporting. Among others, this prominently refers to data obtained through and during connectivity analyses. This comprises brain parcellations, connectivity maps, structural and functional connections, major white matter tracts, diffusion signal models, white matter tractograms and tractometry, as well as networks based on dimensionality reduction. Sharing processed data and features in addition to raw and minimally-processed data is critical to accelerating scientific discovery. This is because substantial effort, software, and hardware instrumentation, and know-how are required to bring raw data to a usable state. The aim of the present project is to extend the BIDS standard to encompass derivatives resulting from experiments related to macroscopic brain connectivity (U.S. National Institutes of Health NIMH R01-MH126699). During the Brainhack, we would like to

Gather feedback from experts, users, tool developers, ie everyone!
Work on the respective BEPs
Convert BEPs from GoogleDocs to GitHub PRs

Link to the Project

https://pestillilab.github.io/bids-connectivity/

Image for the OHBM brainhack website

https://pestillilab.github.io/bids-connectivity/img/logo.svg

Project lead

Peer Herholz, GitHub: peerherholz, discord: peerherholz Franco Pestilli, GitHub: francopestilli, discord: Ariel Rokem, GitHub: arokem, discord

Main Hub

Montreal

Other Hub covered by the leaders

[X] Montreal
[ ] Asia / Pacific
[ ] Europe / Middle East / Africa
[ ] Americas

Skills

Experience with one of our covered data modalities and respective analysis software packages would be helpful: s/fMRI, dMRI, PET, MEG, i/EEG. Additionally, knowledge of BIDS would come in handy. However, these are not requirements: we're happy to welcome everyone interested.

Good first issues

No response

Twitter summary

Interested in Brain connectivity and FAIR data? The BIDS connectivity project might be of interest to you! During the Brainhack we will discuss work on the different connectivity-related BIDS Extension Proposals (BEPs) and welcome support from all interested parties!

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

bids-connectivity

Please read and follow the OHBM Code of Conduct

[X] I agree to follow the OHBM Code of Conduct during the hackathon

eduff commented 1 year ago

Hi - I won't be at OHBM or in timezone, but is there somewhere other than the BEPs that we might follow/contribute? @PeerHerholz

PeerHerholz commented 1 year ago

Hi @eduff,

thanks for reaching out! Yeah, I prepared a presentation and a GoogleDoc that hopefully should allow folks to follow/contribute. You can find the presentation here and the GoogleDoc here. We are also reachable via the usual slack channels and this jitsi room.

There's also the BIDS town hall that will provide general and BEP-specific updates. The BIDS Connectivity Project will have a slot towards the end of the presentation.

Please let me know if you have any questions and/or run into problems. Thanks again.

Cheers, Peer

eduff commented 1 year ago

Great - happy to help get BEP017 onto github.

On Tue, 18 Jul 2023 at 13:46, Peer Herholz @.***> wrote:

Hi @eduff https://github.com/eduff,

thanks for reaching out! Yeah, I prepared a presentation and a GoogleDoc that hopefully should allow folks to follow/contribute. You can find the presentation here https://docs.google.com/presentation/d/1KTyiMWRI8ML6nzJB_uHeQh5lPD9iEAWL-tf02mZMILE/preview and the GoogleDoc here https://docs.google.com/document/d/1ETGgN7RiTi5sloCMi-YFWY1eQQl7CsNsjyJ7uhR0yPo/edit?usp=sharing. We are also reachable via the usual slack channels and this jitsi room https://meet.jit.si/BIDS_connectivity_project_meeting.

Please let me know if you have any questions and/or run into problems. Thanks again.

Cheers, Peer

— Reply to this email directly, view it on GitHub https://github.com/ohbm/hackathon2023/issues/2#issuecomment-1640149176, or unsubscribe https://github.com/notifications/unsubscribe-auth/AAG4KVEPJIU6VLYKSA3UZM3XQ2AUBANCNFSM6AAAAAAYKM52PQ . You are receiving this because you were mentioned.Message ID: @.***>

ufangYang commented 6 months ago

hi @eduff can you provide the content and/or figure for this project to be added to Brainhack Proceeding 2023 by 15th May? Also, please don't forget to fill out your team member's details using this form: https://forms.gle/Ku3AVHcXvpUqVVkV7 . Cheers

eduff commented 6 months ago

I think this is might be better provided by @PeerHerholz !

ufangYang commented 6 months ago

@eduff thanks!

@PeerHerholz It would be excellent to have your project featured in the Proceedings 2023.

Could you please choose one figure that best fits your content and prepare a summary submission? Here’s what to include:

Title List of authors with full names and emails Text up to 500 words You can also add: One figure with a caption (max 250 characters) Up to ten references Note: Title, authors (please fill out your team member's details via this form https://forms.gle/Ku3AVHcXvpUqVVkV7 ), figure caption, and references are not counted in the 500-word limit.

Also See: https://docs.google.com/document/d/1OCzSL-z_kjMKMMAenCVjFS0Ka79rpT2EWF7Sd4VzHKs/edit?usp=sharing

If you have any questions, please feel free to ask. Cheers

ohbm / hackathon2023