BHD 2023 | In-person, November 22-24, Donostia-San Sebastián, Spain


What is Brainhack Donostia?

A gender-balanced board of researchers from BCBL invites you to join a three-day in-person workshop focused on project development to foster new ideas, findings and future collaborations. In addition, we will host four international keynote speakers that will share their experience on state of the art methods, good practices in science and hot topics in research nowadays. By doing so, we will continue to grow our contributions towards sharing knowledge openly and transparently across disciplines and specialties, and to the development of open-source tools.
Accessibility to science is an important objective for BHD 2023 and we are determined in making this year's event more inclusive and open. A CART system (*Communication Access Realtime Translation) will be provided during all talks and tutorials in order to ensure fluid and intelligible subtitles for deaf and hard of hearing participants. This system is also a valuable aid for all those participants who are not native speakers of English.
BHD 2023 will award 10 travel grants to help cover travel and registration costs for the event. Through these travel awards we want to encourage and promote the participation of junior scientists who have less access to fundings. Awards will be assigned based on statements of purposes provided by the participants themselves, which will be assessed by our committee. If you would like to be considered for one of these travel grants, feel free to click on the following button and to fill out the form. You will be asked to write a short statement of purpose on why you believe this grant could help you attend BHD 2023.
The deadline for the statement of purpose submission is the 8th of November. The grants will be awarded in the following days. If you have any questions about this process, feel free to contact us at info.bhg-donostia@bcbl.eu .


Open Science projects in Neurosciences

Brainhack Donostia is not an ordinary conference but an event focused on cooperation and collaboration in Neuroscience, as well as the promotion of Open Science. Our aim is to explore the multiple applications of neuroscience from a cross-disciplinary perspective. With this goal in mind, we bring together students, researchers, users, and non-academic industry professionals to learn about and develop collaborative projects. BHD 2023 is an opportunity to learn new skills and create long-lasting collaborations with interesting people from various backgrounds with a strong interest in Open Science.
These projects are proposed by the attendees for the attendees, and can be in any stage of development (i.e, it can be just an idea). Any attendee can propose any number of project, but can only lead one. The presenter of the project is responsible for making sure that anyone can contribute to the project, regardless of their level of expertise and background knowledge in programming. If possible, the project leaders should try to define some 'beginners' tasks'. We firmly believe that every single one of the attendees has something valuable to contribute to any project and we can't wait to see what it will be!


Brainhack Global

Brainhack Donostia is part of a larger initiative that holds simultaneous events all over the world with this same goal. A cornerstone of Brainhack is the promotion of responsible research and innovation in an inclusive, open, and transparent manner. Accordingly, knowledge sharing activities and the use of open-source resources are two of the basic tenets of Brainhack.
Through talks, hands-on tutorials, and the development of projects, attendees actively explore and learn how to manage data acquisition using different neuroimaging techniques such as Magnetic Resonance Imaging (MRI), Magneto-/Electroencephalography (M/EEG), or Near-Infrared Spectroscopy (NIRS).


Invited speakers

Open source projects

Community building

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BHD2023 Talks

Qihui Xu, Ihintza Malharin

Postdoctoral Researcher & PhD Student @ BCBL, Basque Center on Cognition, Brain and Language

Oscar Esteban

PhD - Research and teaching FNS fellow @ CHUV

Stefano Moia,

Postdoctoral Researcher @ EPFL & University of Geneva, BHD Founding Chair

Merel Van der Thiel

PhD Student @ Maastricht University

David Linhardt

PhD Student @ High Field MR Center, Center for Medical Physics and Biomedical Engineering, Medical University of Vienna

BHD 2023 | Projects


Clustintime: a toolbox for spatio-temporal clustering of fMRI data
(@ctobias)

This project is a toolbox that allows researchers in neuroimage to apply clustering methods to fMRI data on the spatiotemporal domain. Conventional methods of clustering in fMRI allow to see spatial patterns but cannot describe the temporal dynamics of functional activity.
Providing a tool for researchers interested in analyzing brain patterns in uncontrolled fmri experiments or clinical settings is a necessity that has not been covered yet and that could be done through clustintime.
The project already has its repository on GitHub (see repo) and a public fMRI data will be used for testing.

Goals

Create integration testing suite/framework
Create CI/CD pipeline
Populate CI/CD pipeline with checks


Tedana: TE-dependent analysis
(@eurunuela)

TE-dependent analysis (tedana) is a Python library for denoising multi-echo functional magnetic resonance imaging (fMRI) data. tedana originally came about as a part of the ME-ICA pipeline, although it has since diverged. An important distinction is that while the ME-ICA pipeline originally performed both pre-processing and TE-dependent analysis of multi-echo fMRI data
Check the project release page at see documentation page

Goals

Follow the BHD2023 goals discussion at: github discussion page


Spyking AI: building a cortical inspired network
(@marco7877)

This project aims to build a Tensorflow wrapper to build and train spiking neuron arrays connected though hebbian conections. This tool is proposed to study neural mechanisms during cognitive events, i.e., language production/comprehension

Goals

Build a spiking neuron python class
Build a hebbian learning python class
Test module with one hot vectors labels


phys2CVR: a BIDS-compliant python toolbox to compute cerebrovascular reactivity mapping
(@smoia)

phys2cvr is a python toolbox that aims at offering various approaches to compute cerebrovascular mapping, starting from at least a functional MRI hypervolume. While not the first toolbox to compute CVR out there, I'm aiming at making something easy to adopt, a swiss knife to compute all sorts of maps to image cerebral physiology (not to denoise fMRI timeseries, for that you can check phys2denoise ). phys2cvr should become one of the most complete tools for CVR mapping available, easy to adopt through a CLI (and, if possible, a GUI), with nice reports and plots, and allowing the highest automation through BIDS compliance. No repetition allowed thoough: for all python-based approaches out there, phys2cvr should only act as wrap around. All contributions are welcome - and all contributions are recognised via all-contributors guidelines (and authorship on publications).

Goals

Go through this list as much as possible:


Launchcontainers: A Python tool for launching containerized analysis on HPC
(@yongninglei)

Launchcontainers is a Python-based program built to automatically launch containerlized MRI processing pipelines. This program takes one config.ymal file, one container.json file, and one subject-session-list.txt file as inputs. Using 1 line of bash command, it will automatically send jobs to HPC clusters regarding your computing demands.
This program is well-suited for multi-subject, multi-scan datasets. And it will save a lot of time if you need analysis your entire dataset with different parameters multiple times.
In future versions, we are trying to add more functionality to this repository so that you can launch all the MRI data analysis pipelines such as Heudiconv, fMRIprep, pRF pipelines and etc. Please keep track of this repo and if you have any questions or suggestions, don't hesitate to contact Gari: garikoitz@gmail.com and Tiger: t.lei@bcbl.eu

Goals

Let more people get to know the advantages of using containers to process MRI data to improve the data availability and reproducibility
Let beginner level users get familiar with the UNIX operation and git operation
Add new features to launchcontainer so that it supports more MRI processing pipeline (ie. HeuDiconv, fMRIprep, PRF-analyze)



Social events | Networking

Donostia Scavenger Hunt

November, 21, 2023

Are you ready to embark on an unforgettable journey filled with mystery and clues with your fellow BrainHackers? Look no further, because we're excited to invite you to an exciting Scavenger Hunt in the heart of Donostia!
Don't miss out on the opportunity to explore Donostia in a unique and engaging way. Mark the date on your calendar and get ready for a hunt like no other!

Prepare yourself with a guide of Donostia City

Dinner at Cider House

November, 23, 2023

Are you ready to embark on a culinary journey that will delight your taste buds and immerse you in the rich traditions of the Basque Country? Join us for an unforgettable Cider House Dinner at Saizar Cider House!
Prepare to indulge in a feast of mouthwatering dishes, all served in the warm and welcoming atmosphere of a traditional Basque cider house. This event promises an evening of incredible flavors, friendly camaraderie, and a genuine taste of Basque culture.

Take a look to Saizar Cider House

Previous Brainhack Donosti Editions

  • BHD 2018

    Chairs: César Caballero-Gaudes & Stefano Moia.

    Team: Lucia Amoruso, Usman Ayub Sheikh, Borja Blanco, Manuel Carreiras, Matteo Diano, James Hartzell, Maddi Ibarbia, Nicola Molinaro, Piermatteo Morucci, Sanjeev Nara, Craig Richter, Dana Scarinci, Maite Termenon, Polina Timofeeva.

  • BHD 2019

    Chairs: Stefano Moia & Polina Timofeeva.

    Team: Jose Aguasvivas, Daniel Alcalá, Nicoletta Biondo, Manuel Carreiras, Matteo Diano, Teresa Esteban, Vicente Ferrer, Candice Frances, Sandra Gisbert, James Hartzell, Maddi Ibarbia, Jordi Martorell, Ning Mei, Jose Pérez-Navarro, Carlos Pérez-Serrano, Eneko Uruñuela.

  • BHD 2020

    Chair: Eneko Uruñuela.

    Team: Jose Aguasvivas, Daniel Alcalá, Hülya Aldemir, Irene Arrieta, César Caballero-Gaudes, Manuel Carreiras, Catherine Clark, Florent Dueme, Teresa Esteban, Vicente Ferrer, Candice Frances, Alberto Furgoni, Marta García, Meritxell García, Shuang Geng, Sandra Gisbert, Garikoitz Lerma-Usabiaga, Mengxing Liu, Ning Mei, Stefano Moia, Piermatteo Morucci, Carlos Pérez-Serrano, Ileana Quiñones, Chiara Luna Rivolta, Polina Timofeeva, Trisha Thomas.

  • BHD 2021

    Chairs: Irene Arrieta & Chiara Luna Rivolta.

    Team: Hülya Aldemir, Karen Arellano, César Caballero-Gaudes, Manuel Carreiras, Amaia Carrión, Inés Chavarría, Florent Dueme, Laura Fernández-Merino, Vicente Ferrer, Alberto Furgoni, Garikoitz Lerma-Usabiaga, Lucía Manso, Piermatteo Morucci, José Pérez-Navarro, Abraham Sánchez, Eneko Uruñuela.

  • BHD 2022

    Chairs: Lucía Manso & Hana Zjakic.

    Team: Hülya Aldemir, César Caballero-Gaudes, Manuel Carreiras, Inés Chavarría, Patxi Elsosegi, Laura Fernández-Merino, Ane Gurtubay-Antolin, Garikoitz Lerma-Usabiaga, Leandro Lecca, Ning Mei, Mengxing Liu, Manuela Ruzzoli, Abraham Sánchez, Eneko Uruñuela.

Organizing Team

Brainhack Donosti 2023

Ihintza Malharin

Chair

Marco Flores-Coronado

Chair

Chiara Luna Rivolta

Treasury

Anique Schüller

Treasury

Jiaqi (Mo) Mao

Treasury

Inés Chavarría

Projects & Help Desk

Cristina Comella

Projects

Yi-Ting (Silvia) Yang

Projects

Cristina Tobias

Projects

Ana Bautista

Design

Lucía Manso

Design

Leandro Lecca

IT

Ryland Miller

IT

Cesar Caballero-Gaudes

Talks

Garikoitz Lerma-Usabiaga

Talks

Feel free to contact us!

Contact Us

Do you have any questions about Brainhack Donostia 2023?

You can get in touch with us at info.bhg-donostia@bcbl.eu

Location:

Mikeletegi Pasalekua, 69, 1st floor
20009 Donostia - San Sebastián, Gipuzkoa