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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 755 322

  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 77 25

  3. smriprep smriprep Public

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

    Python 169 46

  4. mriqc mriqc Public

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

    Python 379 141

  5. petprep petprep Public

    PETPrep: A Robust Preprocessing Pipeline for PET Data

    HTML 27 18

Repositories

Showing 10 of 69 repositories
  • nireports Public

    The NiPreps' Reporting and Visualization system - report templates and "reportlets"

    nipreps/nireports's past year of commit activity
    Python 13 Apache-2.0 25 24 (1 issue needs help) 6 Updated Sep 19, 2026
  • niworkflows Public

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

    nipreps/niworkflows's past year of commit activity
    Python 118 Apache-2.0 58 85 (4 issues need help) 21 Updated Sep 18, 2026
  • petprep Public

    PETPrep: A Robust Preprocessing Pipeline for PET Data

    nipreps/petprep's past year of commit activity
    HTML 27 Apache-2.0 18 27 15 Updated Sep 17, 2026
  • nibabies Public

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

    nipreps/nibabies's past year of commit activity
    Python 39 Apache-2.0 17 32 (1 issue needs help) 12 Updated Sep 17, 2026
  • mriqc Public

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

    nipreps/mriqc's past year of commit activity
    Python 379 Apache-2.0 141 85 (10 issues need help) 13 Updated Sep 17, 2026
  • 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 755 Apache-2.0 322 329 (24 issues need help) 15 Updated Sep 16, 2026
  • nipost Public

    Library for post-preprocessing utilities (resampling, etc.)

    nipreps/nipost's past year of commit activity
    Python 0 Apache-2.0 0 0 1 Updated Sep 16, 2026
  • sdcflows Public

    Susceptibility Distortion Correction (SDC) workflows for EPI MR schemes

    nipreps/sdcflows's past year of commit activity
    Python 46 Apache-2.0 30 40 (1 issue needs help) 18 Updated Sep 15, 2026
  • fmriprep_stats Public

    Automatic reports summarizing usage stats from Sentry.io

    nipreps/fmriprep_stats's past year of commit activity
    Jupyter Notebook 5 Apache-2.0 1 0 4 Updated Sep 15, 2026
  • presentations Public

    A common resource for talks, courses and presentations

    nipreps/presentations's past year of commit activity
    HTML 0 CC0-1.0 0 0 0 Updated Sep 14, 2026

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