Abstract
Significance: Fiber photometry (FP) is a widely used technique in modern behavioral neuroscience, employing genetically encoded fluorescent sensors to monitor neural activity and neurotransmitter release in awake-behaving animals. However, analyzing photometry data can be both laborious and time-consuming.
Aim: We propose the fiber photometry analysis (FiPhA) app, which is a general-purpose FP analysis application. The goal is to develop a pipeline suitable for a wide range of photometry approaches, including spectrally resolved, camera-based, and lock-in demodulation.
Approach: FiPhA was developed using the R Shiny framework and offers interactive visualization, quality control, and batch processing functionalities in a user-friendly interface.
Results: This application simplifies and streamlines the analysis process, thereby reducing labor and time requirements. It offers interactive visualizations, event-triggered average processing, powerful tools for filtering behavioral events, and quality control features.
Conclusions: FiPhA is a valuable tool for behavioral neuroscientists working with discrete, event-based FP data. It addresses the challenges associated with analyzing and investigating such data, offering a robust and user-friendly solution without the complexity of having to hand-design custom analysis pipelines. This application thus helps standardize an approach to FP analysis.
Citation
@article{bridge2024fipha,
title = {{{FiPhA}}: An Open-Source Platform for Fiber Photometry Analysis},
shorttitle = {{{FiPhA}}},
author = {Bridge, Matthew F. and Wilson, Leslie R. and Panda, Sambit and Stevanovic, Korey D. and Letsinger, Ayland C. and McBride, Sandra and Cushman, Jesse D.},
year = {2024},
month = feb,
journal = {Neurophotonics},
volume = {11},
number = {1},
pages = {014305},
publisher = {{SPIE}},
issn = {2329-423X, 2329-4248},
doi = {10.1117/1.NPh.11.1.014305},
copyright = {All rights reserved}
}