Convergence in Computational Neuroscience 2012
Joint BrainScaleS CodeJam/NeuroML workshop, Edinburgh, 12-16th March
The NeuroML Development Workshops and the BrainScaleS (previously FACETS) CodeJams have been two important initiatives in recent years for developers of tools in computational and systems neuroscience to present their latest work, exchange ideas and work at achieving interoperability between software applications for investigating brain function. This year these groups will hold a joint workshop (Convergence in Computational Neuroscience) on March 12th-16th in the Informatics Forum in Edinburgh, UK.
Practicalities
The meeting will be held at the Informatics Forum in Edinburgh, UK, from 12th to 16th March 2012.
A list of hotels close to the meeting venue can be found on the NeuralEnsemble.org webpage for the meeting.
Posters are encouraged. Please email p.gleeson -at- ucl.ac.uk and sharon.crook -at- asu.edu if you wish to bring a poster.
There will be a limited number of bursaries available through SIG 4 of the UK INCF Node for travel to the meeting for UK based attendees. Please mail sig4-champions -at- inf.ed.ac.uk for more details. Anyone applying for one of these will have to present a poster on a topic relevant to the meeting. Deadline for applications: 16th Feb.
| Note that the meeting is free to attend and open to all but REGISTRATION IS REQUIRED, and this should be done through the NeuralEnsemble.org website. |
Provisional Agenda
Monday 12th March: NeuroML Development Workshop Day 1
Morning session: Current state of NeuroML 2 development & relationship to other initiativesPadraig Gleeson/Robert Cannon: Update on latest developments in NeuroML 2/LEMS Mike Hull: Introduction to NineML & libNineML Nicolas le Novere: The COMBINE Initiative Sean Hill: The International Neuroinformatics Coordinating Facility Padraig Gleeson: Collaborative Modelling Repository update Open discussion on model specification initiatives |
Afternoon session: Specification of detailed biophysical components in NeuroML 2/LEMSRobert Cannon: Representing channels & synapses & conductance based models in NeuroML 2/LEMS Avrama Blackwell: Experiences with using NeuroML 2 Sergio Solinas: Implementing cerebellar models in PyNEURON, neuroConstruct & NeuroML Breakout sessions: Channel and synapse specifications Proposed structure for abstract neuron model hierarchy |
Tuesday 13th March: NeuroML Development Workshop Day 2
Morning session: Representing morphologies/support for detailed neuronal simulators/relationship to connectomics initiativesJames Kozloski: The Neural Tissue Simulator Eilif Muller: The Blue Brain Project Stephen Larson: The OpenWorm project: Using NeuroML in a highly detailed model of C. elegans |
Afternoon session: Best practices when implementing support for NeuroML in simulatorsDagmar Waltemath: Introduction to SED-ML Yann le Franc: Computational Neuroscience Ontology Stephen Larson: NeuroLex & NIF update Breakout sessions: How best to map generic model descriptions to a given simulator Support for morphologies |
Wednesday 14th March - Friday 16th March
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Full details of the agenda for Wed-Fri will be available on the NeuralEnsemble.org webpage for the meeting. Wednesday: Joint NeuroML/CodeJam workshop on network model descriptionsMorning session: Describing networks I & II Afternoon session: Mini-workshop on Convergence, Interoperability and Reuse in Neuroscience Modelling Software hosted by Robert Cannon Code sprints, tutorials and discussions |
Thursday: CodeJam meetingMorning session: Code generation Compartmental modelling in Python Afternoon session Code sprints, tutorials and discussions |
Friday: CodeJam meetingMorning session: Electrophysiological data analysis Best practices for running an open-source project Afternoon session: Code sprints, tutorials and discussions |
The NeuroML part of this workshop is being made possible with funding from:
