Real-time image processing toolbox for all-optical closed-loop control of neuronal activities
bioRxiv (Cold Spring Harbor Laboratory)(2022)
Abstract
The development of in vivo imaging and optogenetic tools makes it possible to control neural circuit activities in an all-optical, closed-loop manner [[1][1]], but such applications are limited by the lack of software for online analysis of neuronal imaging data. We developed an analysis software ORCA (Online Real-time activity and offline Cross-session Analysis), which performs image registration, neuron segmentation, and activity extraction at over 100 frames per second, fast enough to support real-time detection and readout of neural activity. Our active neuron detection algorithm is purely statistical, achieving much higher speed than previous methods. We demonstrated closed-loop control of neurons that were identified on the fly, without prior recording or image processing. ORCA also includes a cross-session alignment module that efficiently tracks neurons across multiple sessions. In summary, ORCA is a powerful toolbox for fast imaging data analysis, and provides a solution for all-optical closed-loop control of neuronal activity.
### Competing Interest Statement
The authors have declared no competing interest.
[1]: #ref-1
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Key words
calcium imaging,closed-loop optogenetic stimulation,image registration,neuron segmentation,fast image processing,image alignment
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