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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 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 659 299

  2. 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 66 25

  3. smriprep Public

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

    Python 139 41

  4. mriqc Public

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

    Python 314 132

Repositories

Showing 10 of 54 repositories
  • sdcflows Public

    Susceptibility Distortion Correction (SDC) workflows for EPI MR schemes

    Python 33 Apache-2.0 27 33 (1 issue needs help) 5 Updated Mar 21, 2025
  • nireports Public

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

    Python 10 Apache-2.0 19 16 (1 issue needs help) 8 Updated Mar 20, 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.

    HTML 659 Apache-2.0 299 310 (24 issues need help) 14 Updated Mar 20, 2025
  • niworkflows Public

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

    Python 92 Apache-2.0 52 63 (4 issues need help) 7 Updated Mar 20, 2025
  • nifreeze Public

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

    Python 2 Apache-2.0 3 19 11 Updated Mar 19, 2025
  • fmripost-phase Public

    An attempt at an fMRIPost workflow for handling phase data

    Python 3 Apache-2.0 1 13 0 Updated Mar 18, 2025
  • fmripost-rapidtide Public

    A BIDS App for running rapidtide on a preprocessed fMRI dataset.

    Python 2 Apache-2.0 1 12 1 Updated Mar 18, 2025
  • fmripost-aroma Public

    Run ICA-AROMA on fMRIPrep derivatives

    Python 10 Apache-2.0 2 20 2 Updated Mar 12, 2025
  • nibabies Public

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

    Python 27 Apache-2.0 11 36 3 Updated Mar 7, 2025
  • smriprep Public

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

    Python 139 Apache-2.0 41 57 (1 issue needs help) 5 Updated Mar 7, 2025