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bioRxiv · 10.1101/006791

Bonsai: An event-based framework for processing and controlling data streams

Gonçalo Lopes·Niccolò Bonacchi·João Frazão·Joana P. Neto·Bassam V. Atallah·Sofia Soares·Luís Moreira·Sara Matias·Pavel M. Itskov·Patrícia A. Correia·Roberto E. Medina·Lorenza Calcaterra·Elena Dreosti·Joseph J. Paton·Adam R. Kampff
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Abstract

The design of modern scientific experiments requires the control and monitoring of many parallel data streams. However, the serial execution of programming instructions in a computer makes it a challenge to develop software that can deal with the asynchronous, parallel nature of scientific data. Here we present Bonsai, a modular, high-performance, open-source visual programming framework for the acquisition and online processing of data streams. We describe Bonsais core principles and architecture and demonstrate how it allows for flexible and rapid prototyping of integrated experimental designs in neuroscience. We specifically highlight different possible applications which require the combination of many different hardware and software components, i0ncluding behaviour video tracking, electrophysiology and closed-loop control of stimulation parameters.

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Gonçalo Lopes, Niccolò Bonacchi, João Frazão, Joana P. Neto, Bassam V. Atallah, Sofia Soares, Luís Moreira, Sara Matias, Pavel M. Itskov, Patrícia A. Correia, Roberto E. Medina, Lorenza Calcaterra, Elena Dreosti, Joseph J. Paton, Adam R. Kampff. 2014-07-02. Bonsai: An event-based framework for processing and controlling data streams. https://doi.org/10.1101/006791

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