Open collaboration in computational neuroscience: A workshop at CNS 2015
9am - 5pm, Thursday July 23 2015, University of Economics, Prague, Czech Republic
Building and analysing biophysically and anatomically detailed neuronal networks is a complex and time consuming task, which ideally involves researchers with a range of backgrounds and technical skills. However, most labs cannot expect to have all of these researchers present at any given time. This can lead to stalled projects, lost data/software and needless repetition of experimental and computational work.
A number of initiatives have been started which address these issues. Some are creating public resources with freely available data to constrain such models. Others are using best practices from open source software development to encourage building and sharing of models in a collaborative environment. This workshop served as an informative introduction to these projects as well as a discussion forum for getting feedback and gathering requirements from the community for the developers of these initiatives.
Organisers: Padraig Gleeson (University College London) & Aurel A. Lazar (Columbia University)
| Time | Presenter| Title/subject |
| 9:00 | | Introduction/welcome |
| 9:01 | Jan Antolik (CNRS) | Collaboration in neuronal modelling: model sharing, workflows and provenance |
| 9:30 | Nicholas Cain (Allen Brain Institute) | Resources for Open Collaboration at the Allen Brain Institute (Slides) |
| 10:00 | | Coffee break |
| 10:30 | Padraig Gleeson (University College London) | NeuroML & the Open Source Brain Initiative (Slides) |
| 11:00 | Adrian Quintana (University College London) | Geppetto: online visualisation & simulation for neuronal models (Slides) |
| 11:30 | Lightning Talks | Michael Sonntag The NIX Project: Comprehensive Storage of Neuroscience Data and Metadata (Slides)
Victor Jirsa The Virtual Brain
Chaitanya Chintaluri NSDF: neuroscience simulation data format (Slides) | | 12:00 | | Lunch | | 13:30 | Matteo Cantarelli (MetaCell Ltd) | OpenWorm (Slides) | | 14:00 | Aurel A. Lazar (Columbia University) | Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain | | 14:30 | Bill Lytton (SUNY Downstate Medical Center) | ModelDB (Slides) | | 15:00 | | Coffee break | | 15:30 | Eilif Muller (EPFL) | Human Brain Project resources for the integrative modelling community (Slides) | | 16:00 | Shreejoy Tripathy (University of British Columbia) | Open electrophysiology data and Neuroelectro.org (Slides) | | 16:30 | | Open Discussion | | 17:00 | | Wrap up |
For any enquiries about this workshop, please contact Padraig Gleeson (p.gleeson -at- ucl.ac.uk)