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@nipreps

NeuroImaging PREProcessing toolS

NiPreps (NeuroImaging PREProcessing toolS)

Please visit www.nipreps.org for a more comprehensive description of this community. Don't forget to also learn about the sister initiative www.templateflow.org.

News and some discussions take place at the Nipreps GitHub discussions.

About

The current neuroimaging workflow has matured into a large chain of processing and analysis steps involving a large number of experts, across imaging modalities and applications. The development and fast adoption of fMRIPrep have revealed that neuroscientists need tools that simplify their research workflow, provide visual reports and checkpoints, and engender trust in the tool itself. The NiPreps framework extends fMRIPrep's approach and principles to new imaging modalities. The vision for NiPreps is to provide end-users (i.e., researchers) with applications that allow them to perform quality control smoothly and to prepare their data for modeling and statistical analysis.

Acknowledgments

This work is steered and maintained by the NiPreps Community. The development of this framework is supported the NIMH (RF1MH121867, RAP, OE).

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  1. fmriprep fmriprep Public

    fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

    HTML 683 303

  2. dmriprep dmriprep Public

    dMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse dMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

    Python 67 24

  3. smriprep smriprep Public

    Structural MRI PREProcessing (sMRIPrep) workflows for NIPreps (NeuroImaging PREProcessing tools)

    Python 143 42

  4. mriqc mriqc Public

    Automated Quality Control and visual reports for Quality Assessment of structural (T1w, T2w) and functional MRI of the brain

    Python 331 134

Repositories

Showing 10 of 56 repositories
  • petprep Public

    PETPrep: A Robust Preprocessing Pipeline for PET Data

    nipreps/petprep’s past year of commit activity
    Jupyter Notebook 4 Apache-2.0 5 1 2 Updated Jul 17, 2025
  • migas-server Public
    nipreps/migas-server’s past year of commit activity
    Python 3 Apache-2.0 1 6 (1 issue needs help) 0 Updated Jul 17, 2025
  • nifreeze Public

    A flexible framework for volume-wise artifact estimation and correction across multiple 4D neuroimaging modalities (diffusion MRI, functional MRI, and PET)

    nipreps/nifreeze’s past year of commit activity
    Python 5 Apache-2.0 4 25 (1 issue needs help) 10 Updated Jul 16, 2025
  • qkay Public

    Manager for the quality assessment of large neuroimaging studies

    nipreps/qkay’s past year of commit activity
    HTML 5 Apache-2.0 3 11 7 Updated Jul 15, 2025
  • fmriprep Public

    fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

    nipreps/fmriprep’s past year of commit activity
    HTML 683 Apache-2.0 303 310 (24 issues need help) 11 Updated Jul 15, 2025
  • nipreps.github.io Public

    The NiPreps landing page

    nipreps/nipreps.github.io’s past year of commit activity
    Python 3 CC0-1.0 11 7 (1 issue needs help) 1 Updated Jul 14, 2025
  • niworkflows Public

    Common workflows for MRI (anatomical, functional, diffusion, etc)

    nipreps/niworkflows’s past year of commit activity
    Python 99 Apache-2.0 53 68 (4 issues need help) 7 Updated Jul 6, 2025
  • migas-py Public

    A ready-to-go python package for communicating with a migas server

    nipreps/migas-py’s past year of commit activity
    Python 4 Apache-2.0 1 4 0 Updated Jul 3, 2025
  • nibabies Public

    fMRIPrep Lifespan - A robust, transparent workflow tailored for neonate and infant MRI

    nipreps/nibabies’s past year of commit activity
    Python 33 Apache-2.0 12 37 1 Updated Jul 2, 2025
  • fmripost-phase Public

    An attempt at an fMRIPost workflow for handling phase data

    nipreps/fmripost-phase’s past year of commit activity
    Python 3 Apache-2.0 1 10 1 Updated Jul 1, 2025
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