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GuPPy, a Python toolbox for the analysis of fiber photometry data.

Venus N Sherathiya1, Michael D Schaid1, Jillian L Seiler1,2

  • 1Department of Neuroscience, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.

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|December 21, 2021
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Summary

Fiber photometry (FP) analysis is simplified with GuPPy, a new Python tool. This open-source software makes in vivo neural activity recording analysis accessible to researchers, regardless of programming experience.

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Area of Science:

  • Neuroscience
  • Computational Biology
  • Bioinstrumentation

Background:

  • Fiber photometry (FP) is a widely used technique for recording in vivo neural activity in freely behaving animals.
  • Its popularity stems from ease of use, low cost, and compatibility with behavioral studies.
  • However, analyzing FP data presents challenges, particularly for users with limited programming expertise.

Purpose of the Study:

  • To introduce Guided Photometry Analysis in Python (GuPPy), a novel, free, and open-source software tool.
  • To simplify and streamline the analysis of fiber photometry data for a broader range of neuroscience researchers.
  • To provide a user-friendly, cross-platform solution for processing and visualizing neural activity data.

Main Methods:

  • Development of GuPPy, a Python-based software application featuring graphical user interfaces (GUIs).
  • GuPPy is designed for cross-platform compatibility and accepts data from various FP acquisition systems.
  • The software guides users through data loading and parameter input, generating exportable graphs.

Main Results:

  • GuPPy offers an intuitive interface for fiber photometry data analysis, reducing the technical barrier for new users.
  • The tool generates easily exportable graphical representations of neural activity data.
  • As an open-source project, GuPPy allows for user modification and customization by those with Python knowledge.

Conclusions:

  • GuPPy significantly lowers the barrier to entry for fiber photometry data analysis in neuroscience research.
  • The software democratizes access to advanced neural activity analysis techniques.
  • GuPPy's open-source nature fosters community-driven development and adaptation for diverse research needs.