dcbrainhack-git

authors:

• Alice Abbondanza
• Josh Lawrimore
• Not Christoph

Purpose

Create a repository of fiber photometry analysis papers with code examples

Papers with Code

• Fiber Photometry Analysis of Spontaneous Dopamine Signals: The Z-Scored Data Are Not the Data
• FiPhoPHA-A Fiber Photometry Python Package for Post Hoc Analysis
• Optimized workflow for behavior-coupled fiber photometry experiment: improved data navigation and accessibility
• PASTa: An Open-Source Analysis and Signal Processing Toolbox for Fiber Photometry Data
• Obtaining artifact-corrected signals in fiber photometry via isosbestic signals, robust regression, and dF/F calculations
• A statistical framework for analysis of trial-level temporal dynamics in fiber photometry experiments
• FiPhA: an open-source platform for fiber photometry analysis
• PhAT: A Flexible Open-Source GUI-Driven Toolkit for Photometry Analysis
• Integrating operant behavior and fiber photometry with the open-source python library Pyfiber
• GuPPy, a Python toolbox for the analysis of fiber photometry data
• pMAT: An open-source software suite for the analysis of fiber photometry data  

Source Code Only

• FluoR (R Language)
• FPA (MATLAB)  

Data

• Dandi Archive
• TDT Example Data (click to download)

Program Characterization

• What kind of files can it parse?
• What kind of pre-processing can the program peform? Downsampling, smoothing, artifact detection?
• What kind of analyses can the program perform?
• What kind of visualizations?