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Visualizing, editing and simulating neuronal models with the Open Source Brain 3D explorer

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The Open Source Brain initiative (OSB, www.opensourcebrain.org) is an online platform which aims to facilitate sharing and collaborative development of neuronal models... OSB currently hosts more than 70 projects, has 350 users, and 40 member labs... If a specific model has been converted to NeuroML2/LEMS the user can make use of a wide range of advanced features in the Open Source Brain 3D explorer... The OSB 3D explorer is a graphical framework for analysis and simulation of neural models based on Geppetto (http://www.geppetto.org)... OSB 3D explorer provides a 3D canvas in order to display the model neurons/network... In addition, a wide variety of "widgets" allow the user to access data on both the model and the simulation... A Tree Visualiser widget allows the user to analyze the dynamics of the model, visualize a summary and to modify aspects of the model... The model can be downloaded in different formats (such as NEURON, Brian, Matlab, etc.) or can be simulated on a server/cluster... Such simulations will be executed asynchronously and the user can manage the simulations and analyze the results through a web dashboard... Some other widgets provide tools to analyze the connections in the network, inspect variables during the simulation or generate plots showing for instance the dynamics of a gate or the membrane potential of a cell during the simulation... Every change in the model and simulation outputs is stored in the database providing the user traceability and reproducibility of the whole experiment.

No MeSH data available.


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Visualizing, editing and simulating neuronal models with the Open Source Brain 3D explorer
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4697478&req=5

View Article: PubMed Central - HTML

AUTOMATICALLY GENERATED EXCERPT
Please rate it.

The Open Source Brain initiative (OSB, www.opensourcebrain.org) is an online platform which aims to facilitate sharing and collaborative development of neuronal models... OSB currently hosts more than 70 projects, has 350 users, and 40 member labs... If a specific model has been converted to NeuroML2/LEMS the user can make use of a wide range of advanced features in the Open Source Brain 3D explorer... The OSB 3D explorer is a graphical framework for analysis and simulation of neural models based on Geppetto (http://www.geppetto.org)... OSB 3D explorer provides a 3D canvas in order to display the model neurons/network... In addition, a wide variety of "widgets" allow the user to access data on both the model and the simulation... A Tree Visualiser widget allows the user to analyze the dynamics of the model, visualize a summary and to modify aspects of the model... The model can be downloaded in different formats (such as NEURON, Brian, Matlab, etc.) or can be simulated on a server/cluster... Such simulations will be executed asynchronously and the user can manage the simulations and analyze the results through a web dashboard... Some other widgets provide tools to analyze the connections in the network, inspect variables during the simulation or generate plots showing for instance the dynamics of a gate or the membrane potential of a cell during the simulation... Every change in the model and simulation outputs is stored in the database providing the user traceability and reproducibility of the whole experiment.

No MeSH data available.