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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 65 48

  3. phys2denoise phys2denoise Public

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

    Python 9 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 20

Repositories

Showing 10 of 19 repositories
  • 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!

    physiopy/phys2bids’s past year of commit activity
    Python 65 Apache-2.0 48 51 (3 issues need help) 8 Updated Jan 19, 2026
  • phys2denoise Public

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

    physiopy/phys2denoise’s past year of commit activity
    Python 9 Apache-2.0 20 22 (2 issues need help) 7 Updated Jan 19, 2026
  • physioqc Public

    Toolbox for physiological data (Automagic) Quality Control

    physiopy/physioqc’s past year of commit activity
    Python 3 Apache-2.0 8 11 (1 issue needs help) 3 Updated Jan 19, 2026
  • bids-specification-physio Public Forked from bids-standard/bids-specification

    Physiological Data Extension Proposal for the Brain Imaging Data Structure (BIDS) Specification *** NEWCOMERS, please navigate to the below Discussions page to get started: https://github.com/physiopy/bids-specification-physio/discussions/1

    physiopy/bids-specification-physio’s past year of commit activity
    Python 0 CC-BY-4.0 193 12 1 Updated Jan 15, 2026
  • physiopy-governance Public

    Governance of physiopy

    physiopy/physiopy-governance’s past year of commit activity
    0 CC-BY-4.0 2 11 0 Updated Jan 12, 2026
  • peakdet Public

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

    physiopy/peakdet’s past year of commit activity
    Python 28 Apache-2.0 20 5 (3 issues need help) 3 Updated Jan 5, 2026
  • physiopy-repository-template Public template

    Template repository for physiopy

    physiopy/physiopy-repository-template’s past year of commit activity
    Python 1 Unlicense 1 0 0 Updated Dec 29, 2025
  • .github Public
    physiopy/.github’s past year of commit activity
    0 CC-BY-4.0 0 1 0 Updated Dec 19, 2025
  • physiopy.github.io Public

    Main website for Physiopy documentation.

    physiopy/physiopy.github.io’s past year of commit activity
    1 CC-BY-4.0 14 13 7 Updated Nov 3, 2025
  • physiopy-automations Public

    test & document automations used across physiopy repos

    physiopy/physiopy-automations’s past year of commit activity
    0 0 3 1 Updated Sep 8, 2025

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