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@physiopy

The physiopy community

A set of tools to operate physiological files in MRI setups

Welcome to the Physiopy community

Physiopy’s aim is to improve the quality of physiological data collection and application in neuroimaging research through community discussion and open source tool development.

We are an international group of volunteers that have developed a suite of Python libraries to help researchers process physiological files, particularly when recorded alongside neuroimaging acquisitions. These libraries vary from formatting physiological files into a standard format, data quality control, peak detection analyses and preparing physiological data for fMRI denoising.

🌐 Check out our Website, which includes our Contributor Guide and Code of Conduct.

📝 Read our Community Practices, where you can find advice and recommendations for physiological data acquisition, preprocessing, and analysis.

🧑‍💻 We meet virtually, typically every third Thursday of the month. To join (and for other general enquiries about where to keep up to date with community updates and discussions) email physiopy.community@gmail.com.

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  1. physiopy physiopy Public

    Metapackage for physiopy repository

    Python 2 5

  2. phys2bids phys2bids Public

    Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!

    Python 66 49

  3. phys2denoise phys2denoise Public

    A toolbox and collection of scripts to prepare physiology data for fMRI denoise

    Python 10 20

  4. physioqc physioqc Public

    Toolbox for physiological data (Automagic) Quality Control

    Python 3 8

  5. prep4phys prep4phys Public

    A toolbox for physiological peak detection analyses. Formerly peakdet.

    Python 1 3

  6. peakdet peakdet Public

    Toolbox for physiological peak detection analyses. Soon to be deprecated in favour of prep4phys

    Python 28 22

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