First of three speakers at the PLoS special session - Allyson Lister

All three speakers are editors at PLoS Comp Biol - Diego M. Riaño-Pachón

In computational neuroscience, the key ideas to be communicated are mathematical and computational models as well as data analysis methods - Allyson Lister

Very little standardization in many areas of computational neuroscience - Allyson Lister

Lack of standardization is hindering progress and building on others work - Diego M. Riaño-Pachón

Abigail Morrison can think of only one model, in all the times she's worked on it, that they've been able to reproduce without going back to the authors - Allyson Lister

Is it science, or is it travel reporting? - Allyson Lister

Approach to solve the problem: work together to create tools to facilitate reproducibility - Diego M. Riaño-Pachón

International Neuroinformatics Coordinating Facility http://www.incf.org/ - Diego M. Riaño-Pachón

Japan node: Visiome http://platform.visiome.neuroinf.jp/ (and we have another -omics) - Diego M. Riaño-Pachón

The Japanese node focuses on the visual side of things, and has produced Visiome, which attempts to collect both papers and figures separately as well as model parameters, simulation scripts and figure-generation scripts. This can all be downloaded, and then hopefully run it on your own system - Allyson Lister

Also the Simulation Server Platform, which uses a VM to reproduce the environment the original model was run in so others can test and run it - Allyson Lister

German node' goal is to provide open source tools for data sharing and analysis - Diego M. Riaño-Pachón

The problem is that there are many different recording devices and analysis tools, and no standardization - Allyson Lister

German node developing unified data format + associated tools - Allyson Lister

They also want to design and implement a machine-readable declarative language to describe neural network model (like SBML) - first meeting in March 2009 so still new. - Allyson Lister

PyNN, Python Neural network simulation package - Diego M. Riaño-Pachón

facilitates cross-checking, as it can run on any simulator that implements the common API - Diego M. Riaño-Pachón

Simulation-code written in PyNN, can use several underlying simulators, instead of using simulator-specific languages - Diego M. Riaño-Pachón

Gregory Wilson, American Scientist 2006 "Where's the real bottleneck in scientific computing?" - Allyson Lister

if nobody can understand you ideas and reproduce your results, have you really remove a bottleneck or just made it somebody else"s problem? - Diego M. Riaño-Pachón

Blog post: http://themindwobbles.wordpress.com/2009... - Allyson Lister