Protocol for detecting neuronal subnetworks from in vivo calcium imaging data using multiple clustering algorithms in MATLAB

Protocol for detecting neuronal subnetworks from in vivo calcium imaging data using multiple clustering algorithms in MATLAB

Summary: Neuronal subnetworks, defined by co-activation patterns, are fundamental units of brain computation. We provide a step-by-step workflow to detect subnetworks from in vivo calcium imaging data using multiple clustering algorithms in MATLAB. We apply statistical modeling in R to evaluate grou...

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Bibliographic Details
Main Authors: Jui-Yen Huang, Gautam Chauhan, Pei-Ying Chen, Esen Tuna, Hui-Chen Lu
Format: Article
Language:English
Published: Elsevier 2025-09-01
Series:STAR Protocols
Subjects:
Developmental biology
Microscopy
Neuroscience
Molecular/Chemical Probes
Systems biology
Computer sciences
Online Access:http://www.sciencedirect.com/science/article/pii/S2666166725004368
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Summary:Summary: Neuronal subnetworks, defined by co-activation patterns, are fundamental units of brain computation. We provide a step-by-step workflow to detect subnetworks from in vivo calcium imaging data using multiple clustering algorithms in MATLAB. We apply statistical modeling in R to evaluate group-level differences, followed by model selection and bootstrapping for robust estimation. Finally, we use an R Markdown template to generate a structured statistical report.For complete details on the use and execution of this protocol, please refer to Huang et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.
ISSN:2666-1667

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