Open Vision project: opening brain simulations to public.
| Thesis title in Czech: | Open Vision project: opening brain simulations to public. |
|---|---|
| Thesis title in English: | Open Vision project: opening brain simulations to public. |
| Key words: | scientific software; open science; web front-end; science popularization; neuroscience; simulation software; server back-end |
| Academic year of topic announcement: | 2022/2023 |
| Thesis type: | diploma thesis |
| Thesis language: | |
| Department: | Department of Software and Computer Science Education (32-KSVI) |
| Supervisor: | Mgr. Ján Antolík, Ph.D. |
| Author: |
| Guidelines |
| Simulations of biological neural networks are becoming an important tool for advancing of our understanding how brain processes information. Mozaik [1] is a an automated workflow for large-scale neural simulations. Inspired by the OpenWorm [2] initiative, this project will strive to bring neural based modelling of vision to wider audience. The student will be responsible for building a web-based frontend for our set of brain simulation tools, specifically the student will:
(1) Build a server running mozaik based primary visual cortex model and serve it on the new Open Vision website. The website will allow any user to submit a video and receive back the responses of selected model cells to the video input. (2) Develop a web frontend to the Mozaik toolkit and use it to expand the Open Vision website to allow full configuration of the served model. Publish more models and experimental protocols already develop in our group. Automatic insertion of results into our Arkheia [3] system. |
| References |
| [1] Antolík, J., & Davison, A. P. (2013). Integrated workflows for spiking neuronal network simulations. Frontiers in Neuroinformatics, 7(December), 1–15. https://doi.org/10.3389/fninf.2013.00034
[2] Szigeti, B., Gleeson, P., Vella, M., Khayrulin, S., Palyanov, A., Hokanson, J., … Larson, S. (2014). OpenWorm: an open-science approach to modeling Caenorhabditis elegans. Frontiers in Computational Neuroscience, 8, 137. https://doi.org/10.3389/fncom.2014.00137 [3] Antolík, J., & Davison, A. P. (2018). Arkheia: Data Management and Communication for Open Computational Neuroscience. Frontiers in Neuroinformatics, 12, 6. https://doi.org/10.3389/fninf.2018.00006 |