in bioRxiv on July, 2023
Abstract
Significance: Fiber photometry 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 FiPhA (Fiber Photometry Analysis) app, which is a general-purpose fiber photometry 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 fiber photometry 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 fiber photometry analysis.
Citation
@misc{bridge2023fipha,
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 = {2023},
month = jul,
publisher = {{bioRxiv}},
doi = {10.1101/2023.07.21.550098},
archiveprefix = {bioRxiv},
copyright = {\textcopyright{} 2023, Posted by Cold Spring Harbor Laboratory. This article is a US Government work. It is not subject to copyright under 17 USC 105 and is also made available for use under a CC0 license},
langid = {english}
}