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GSOC 2017
The Virtual Brain (TVB) is one of the few open source neuroinformatics platforms used to simulate whole brain dynamics. Models are not limited to the human brain, and researchers can also work with the macaque's or the rodent's connectome. Models based on biologically realistic macroscopic connectivity will hopefully help us to understand the global dynamics observed in the healthy and diseased brain.
Whether you are interested in beautiful visualizations or differential equations, you can join us and help us improve!
Several open issues of TVB, addressed by the following proposals involve:
- enhancing visualization
- improving portability
Description Data visualization plays a crucial role in TVB's neuroinformatics platform. Some of our viewers are already old (developed when WebGL was at version 0.9). We want them improved (in fps and code quality), as well as extended in user experience. An interaction paradigm needs to be proposed by the student, as well as the implementation needs to be done. We have over 20 existing viewers, from which the student could choose which ones he or she wants to review. We also have about 4 new viewers who could be implemented from scratch by the student. Rendering performance as well as per-element interaction is important.
Skills required: HTML5/JS/CSS & Python; Experience in web development, JQuery, SVG, WebGL, as well as server side frameworks such as CherryPy, is helpful.
Mentors: Lia Domide (@liadomide), Mihai Andrei (@mihandrei)
Description TVB provides many options in terms of neural mass models, however comparing these models to simulations from other simulators such as NEST or PyNN remains challenging because they do not implement neural mass models such as those in TVB. However, a standard model description language, NeuroML / LEMS, has been developed. This project proposes to translate TVB's neural mass models into the NeuroML or LEMS format, test their behavior against the current Python implementation and publish them as an open source resource.
Skills required: Python & XML, as well as experience with neural mass models & differential equations.
Mentors: Lia Domide (@liadomide), Mihai Andrei (@mihandrei)
TVB's main web site is http://www.thevirtualbrain.com/ and more technical documentation can be found at http://docs.thevirtualbrain.com/
We intend to participate in GSOC 2017 under the INCF organization, as we did in the past years. We thank INCF org admins for making this great experience possible for us! https://www.incf.org/collaborate/tool-development/google-summer-of-code