EBRAINS users days - Agenda

(show all abstracts)
(Agenda as of 2026/09/11-22:05 CEST)
Tuesday, 6 October 2026
08:45
EBRAINS users days -day I: especially for EBARINS newcomers

We recommend to attend "in person" in Heidelberg. For people, who can not make it: The talks during the introduction day (6 October) will also be streamed (free of charge).

Venue: at the EINC in Heidelberg, Germany

Street address: Im Neuenheimer Feld 225a, 69120 Heidelberg, Germany.
Please see the EINC page for tram and parking info.

show a map of the venue (A few hotels are marked in the map with direct links to their own or their booking.com page. Heidelberg has a lot more hotels - listed e.g. on booking.com or on hrs.de)



Registration

The registration fee of 25 Euro / day includes the lunch at Heidelberg University mensa, coffee breaks and cookies.
To register for the users day :

(To request a free-of-charge EBRAINS users account please use https://ebrains.eu/register)



Posters

12 poster boards in the coffee break area are available (contact Björn to reserve one) to highlight tools or services and serve as conversation-starters:

  • The EBRAINS Software Distribution (ESD)
  • BrainScaleS neuromorphic compute system
  • EBRAINS tools-for-teaching




(for linking to the agenda this ebrains.eu URL can be used.) .

08:45‑09:00
(15 min)		 Registration desk open

Collect your name-tag and a cookie.

09:00‑09:10
(10 min)		 Welcome to the dayKatrin Amunts
09:10‑10:10
(60 min)		 EBRAINS Reseearch Infrastructue Introduction

An introduction tour through the whole EBRAINS Research Infrastructure.

Moderated by Jan Bjaalie
10:10‑10:40
(30 min)		 Coffee break
10:40‑11:30
(50 min)		 EBRAINS Data and Knowledge services: past, present, future

Introduction + panel discussion with audience feedback

Moderated by Jan Bjaalie
11:30‑12:30
(60 min)		 Lunch at Heidelberg University mensa

12:30‑12:35
(5 min)		 Introduction to the EBRAINS and Instruct-ERIC strategic collaborationPhilippe Vernier
12:35‑12:55
(20+5 min)		 Introduction to Instruct-ERIC'

Instruct-ERIC is a pan-European distributed research infrastructure making high-end technologies and methods in structural biology available to users. In July, EBRAINS and Instruct-ERIC signed a Memorandum of Understanding, establishing a strategic collaboration to strengthen links between digital neuroscience and structural biology research infrastructures in Europe.

Regina Guenster
13:00
Introduction to the basics of the EBRAINS Research Infrastructure
13:00‑14:00
(60 min)		 Session

Introduction to the basics of the EBRAINS Research Infrastructure:

  • EBRAINS account
  • The Collaboratory - collaboration environment for research teams
    • wiki - a place for easy documention
    • drive - a place to store files
  • Lab - An execution environment for python notebooks for no-installation access to EBRAINS tools - an introduction with examples from different project areas
  • Handbook
  • Forms?
Eleni
14:00‑14:30
(30 min)		 Coffee break

14:30
Introductions to different aspects of the EBRAINS RI
14:30‑14:50
(20 min)		 Curation-Ready: Data, Models & Software

An introduction on how to prepare for curation of datasets, models or software for inclusion in the EBRAINS RI knowledge graph and data sharing services

TDB
14:50‑15:10
(20 min)		 Computing big: High Performance Compute (HPC) resources

Introduction of the ways the EBRAINS team can help creating a sound proposal for applying for High Performance Compute (HPC) resources for research cases, where local compute power is insufficient.

TBD
15:10‑15:30
(20 min)		 The EBRAINS software distribution (ESD)

The EBRAINS software distribution provides a software environment (container) for using lots of EBRAINS tools in the same setup - from usage on an individual system up to HPC environments. This session demonstrates the process (download, use, scale up).

Eleni (TBC)
15:30‑15:50
(20 min)		 EBRAINS workflows: all tools on deck

Workflows combining different tools potentially running at different sites (e.g. for accessing local data sets and leverage compute power).
15:50‑16:20
(30 min)		 Cerebellar models repo and Cerebellar-hub

Workflows introductions to the cerebellar models repo and the Cerebellar-hub

Dimitri Rodarie (UNIPV)

Wednesday, 7 October 2026
09:00
EBRAINS user days - day II: hands-on tool tutorials

There slots, 2h each, of parallel offers for hands-on tutorials.

For most of the EBRAINS tools used in the tutorials an EBRAINS account will be needed. Best get your account ahead of time. If that is not possible you can also get a guest account on the spot to be able to participate in the hands-on tool usage sessions.

09:00‑09:15
(15 min)		 (Registration for attendants of day II)
09:15‑09:30
(15 min)		 Get your EBRAINS account ready -- guest accounts for the rest
09:30‑11:30
(120 min)		 Parallel hands-on tutorials

show abstract

Medical Informatics Platform (MIP)TVB - introductionHands-on SpiNNakerKnowledge Graph for data consumers Brain Scaffold Builder (BSB)
Birgit Schaffhauser

This tutorial introduces participants to the Medical Informatics Platform (MIP), a federated environment for secure discovery and analysis of distributed health data.
more info

Spase Petkoski

The Virtual Brain (TVB) session showing the basic building block of TVB. more info

Andrew Rowley

Tutorial for the digital real time neuromorphic compute system SpiNNaker-1 more info

Andrew Davison

Covering both the access via browser and via API

Dimitri Rodarie (UNIPV)

The BSB is a framework for reconstructing and simulating multi-paradigm neuronal network models.
11:30‑12:30
(60 min)		 Lunch
12:30‑14:30
(120 min)		 Parallel hands-on tutorials

show abstract

Siibra-python in action: Advanced workflows with siibra-pythonTVB - resting state modellingIntegrated visual simulation and analysis workflows using NEST Desktop and Elephant LabKnowledge Graph for data providersSub-cellular and molecular simulation category tool (TBC)TBC5M Connectome Tutorial

The siibra toolsuite provides programmatic access to the EBRAINS multilevel brain atlas, integrating reference spaces, parcellation maps, and a broad range of multimodal neuroscience data. In this advanced, hands-on tutorial, participants will learn how to use siibra-python to integrate and analyse their own data in an atlas context.

more info

Spase Petkoski

This second TVB session will describe fast back-end implementation of the Montbrio-Pazo-Roxin model used for modeling resting state fMRI . This is a based on a more detailed showcase Degeneracy in neuroscience, as well as virtual brains with neuromodulation through the example of dopaminergic activity DOI 10.25493/9KR4-BNK

Cristiano Köhler, Tobias Michels and Michael Denker

Introductory level tutorial introducing participants to analyzing electrophysiological data from simulation and experiment.

more info

Andrew Davison

Covering both browser- and API-access
Cecilia Assolito (UNIPV)

Participants will become familiar with the 5M Connectome features, learn how to harmonize data across sites, and integrate different modalities, guided by an example research question.

more info
14:30‑15:00
(30 min)		 Coffee break
15:00‑17:00
(120 min)		 Parallel hands-on tutorials

More information about the tutorials in this slot:

show abstract

Introduction to simulating neural networks using ArborHands-on BrainScaleSHuman Intracerebral EEG Platform (HIP) powered by CHORUSCuration Q & A Large-Scale Simulation-Based Inference with TVB.Clinical Connectome Tutorial

Thorsten Hater

Target audience: Researchers interested in detailed cell models

This tutorial will show the basics of designing detailed cell models, how to run them using Arbor, and how to grow them into larger networks. more info

Intro: Yannik Stradmann

In this tutorial, participants have the chance to explore BrainScaleS-2, one of the world’s most advanced analog platforms for neuromorphic computing. more info

Birgit Schaffhauser

This tutorial introduces participants to CHORUS, a trusted research environment for secure and collaborative data-driven research. more info

This is mainly intended as a Questions & Answers session, where data-providers can bring their issues/requests and discuss them on-site with curation team members.

Michiel van der Vlag

This hands-on tutorial introduces large-scale Simulation-Based Inference (SBI) with The Virtual Brain (TVB) using a pre-built workflow hosted and accessible through the EBRAINS infrastructure.

more info

Andreea Stefania Radu (UNIPD)

Aim: Participants will become familiar with the Clinical Connectome features and will learn how to combine them to address a simple clinical research question.

more info
17:00
End of the hands-on tools trainings



Infos: