Connectionists: Google Summer of Code: model and experimental data sharing on Open Source Brain

[Padraig Gleeson]

--Apologies for cross-posting--

Google Summer of Code <https://summerofcode.withgoogle.com/> is a 
global, online program focused on bringing new contributors into open 
source software development.  Generous stipends are provided for 
successful applicants to work on these projects for a number of months 
over the summer. The INCF <http://incf.org/> has been a GSoC mentoring 
organisation for the past number of years, and has helped link up 
students with mentors to advance various projects in the wider 
neuroinformatics and computational neuroscience areas.

The Open Source Brain initiative <http://www.opensourcebrain.org> is 
encouraging students to apply to be part of this. The successful 
candidate(s) for our 2 proposals will take published computational 
models and experimental datasets and convert them into open, 
standardised formats (e.g. NeuroML and NWB) and share them on the OSB 
platform as a resource for the wider community. The two projects are:

*Open source, cross simulator, large scale cortical models in NeuroML 
and PyNN* 
<https://neurostars.org/t/gsoc-2022-project-idea-9-1-open-source-cross-simulator-large-scale-cortical-models-in-neuroml-and-pynn-175-350-h/21394>

These can be models where code is available in simulator specific 
formats on ModelDB, or classic models from the literature which would 
benefit from curating/updating/documenting. Making models available in 
these formats will allow them to be used & tested across multiple 
simulators, make the physiological properties of the models more 
accessible and facilitate reuse of model components.

*Conversion of public neurophysiology datasets to Neurodata Without 
Borders (NWB) format* 
<https://neurostars.org/t/gsoc-2022-project-idea-9-2-conversion-of-public-neurophysiology-datasets-to-neurodata-without-borders-nwb-format-175-350-h/21395>

This project will involve converting a number of publicly available 
datasets to NWB format, adding structured metadata to ensure maximal 
readability and reusability of the data. The converted datasets will be 
made available through the new NWB Explorer on the Open Source Brain 
repository (http://nwbexplorer.opensourcebrain.org) which allows 
visualisation of the data as well as interactive analysis through an 
inbuilt Jupyter notebook.

*This opportunity is particularly relevant for Masters & PhD students 
currently working in model development/data analysis in  neuroscience. 
Many students **are already reusing/converting/updating existing models 
and data as part of their work and this is a great opportunity to get 
paid extra to do this!
***
Closing date for student applications: *19 April 2022*
Period of working on projects: *13 June - ***12 *September 2022*

Please get in contact if you have any questions.


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Padraig Gleeson
Room 321, Anatomy Building
Department of Neuroscience, Physiology&  Pharmacology
University College London
Gower Street
London WC1E 6BT
United Kingdom

+44 207 679 3214
p.gleeson at ucl.ac.uk
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