Repositories list

• petprep

  Public
  PETPrep: A Robust Preprocessing Pipeline for PET Data

  Jupyter Notebook

  •

  Apache License 2.0

  •2•3•3•0•Updated Jun 9, 2025Jun 9, 2025

• nifreeze

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

  Python

  •

  Apache License 2.0

  •4•4•25•14•Updated Jun 8, 2025Jun 8, 2025

• niworkflows

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

  Python

  •

  Apache License 2.0

  •53•96•67•5•Updated Jun 6, 2025Jun 6, 2025

• smriprep

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

  image-processingmrisurface-reconstruction+ 3image-segmentationimage-registrationstructural-mri

  Python

  •

  Apache License 2.0

  •42•140•58•8•Updated Jun 5, 2025Jun 5, 2025

• acres

  Public
  Resource-loading utility for Python

  pythonresources

  Python

  •

  Apache License 2.0

  •1•0•1•0•Updated Jun 4, 2025Jun 4, 2025

• mriqc

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

  machine-learningquality-controlmri+ 2quality-reporterneuroimaging

  Python

  •

  Apache License 2.0

  •134•325•72•5•Updated Jun 4, 2025Jun 4, 2025

• nireports

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

  Python

  •

  Apache License 2.0

  •20•10•18•8•Updated Jun 2, 2025Jun 2, 2025

• fmripost-phase

  Public
  An attempt at an fMRIPost workflow for handling phase data

  fmrifmriprepfmri-preprocessing

  Python

  •

  Apache License 2.0

  •1•3•10•1•Updated Jun 1, 2025Jun 1, 2025

• fmripost-template

  Public template
  A generic fMRIPost workflow

  Python

  •

  Apache License 2.0

  •4•0•6•4•Updated Jun 1, 2025Jun 1, 2025

• fmripost-aroma

  Public
  Run ICA-AROMA on fMRIPrep derivatives

  fmrifmriprepfmri-preprocessing

  Python

  •

  Apache License 2.0

  •3•15•21•3•Updated Jun 1, 2025Jun 1, 2025

• fmripost-resample

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•1•Updated Jun 1, 2025Jun 1, 2025

• fmripost-rapidtide

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

  fmrifmriprepfmri-preprocessing

  Python

  •

  Apache License 2.0

  •1•3•13•1•Updated Jun 1, 2025Jun 1, 2025

• nipreps.github.io

  Public
  The NiPreps landing page

  Python

  •

  Creative Commons Zero v1.0 Universal

  •11•3•7•3•Updated May 28, 2025May 28, 2025

• nibabies

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

  neuroimagingfmriinfant

  Python

  •

  Apache License 2.0

  •12•33•38•3•Updated May 25, 2025May 25, 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.

  image-processingneuroimagingfmri+ 3bidsbrain-imagingfmri-preprocessing

  HTML

  •

  Apache License 2.0

  •301•674•309•9•Updated May 23, 2025May 23, 2025

• GOVERNANCE

  Public
  The NiPreps Community's Governance Documents

  Python

  •

  Creative Commons Attribution 4.0 International

  •2•3•7•1•Updated May 21, 2025May 21, 2025

• sdcflows

  Public
  Susceptibility Distortion Correction (SDC) workflows for EPI MR schemes

  magnetic-resonance-imagingecho-planar-imagingnonlinear-distortions+ 1image-artifacts

  Python

  •

  Apache License 2.0

  •28•40•33•6•Updated May 15, 2025May 15, 2025

• synthstrip

  Public
  Synthstrip integration to be used across nipreps

  Python

  •

  Apache License 2.0

  •2•11•1•2•Updated May 15, 2025May 15, 2025

• NORDIC_Raw

  Public
  Matlab code for performing image reconstruction in MRI and performing the NORDIC denoising

  MATLAB

  •

  Other

  •26•0•0•0•Updated May 7, 2025May 7, 2025

• fmripost-tedana

  Public
  A BIDS App for the tedana workflow

  Python

  •

  MIT License

  •4•3•11•2•Updated May 2, 2025May 2, 2025

• fmriprep_stats

  Public
  Automatic reports summarizing usage stats from Sentry.io

  Jupyter Notebook

  •1•4•0•1•Updated Apr 21, 2025Apr 21, 2025

• .github

  Public
  Shared community health files

  Creative Commons Zero v1.0 Universal

  •2•2•0•0•Updated Apr 16, 2025Apr 16, 2025

• 202504-sprint

  Public
  NiPreps sprint, Cambridge, MA, April 30 - May 2, 2025

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •1•1•0•0•Updated Feb 5, 2025Feb 5, 2025

• eddymotion

  Public archive
  Open-source eddy-current and head-motion correction for dMRI.

  machine-learningdistortion-correctiondiffusion-mri+ 5nipypedipyeddy-currheadmotiondmriprep

  Python

  •

  Apache License 2.0

  •16•17•0•5•Updated Jan 27, 2025Jan 27, 2025

• version-schemes

  Public
  setuptools_scm plugin for nipreps version schemes

  versioningsetuptools-scm

  Python

  •

  Apache License 2.0

  •0•2•0•0•Updated Dec 10, 2024Dec 10, 2024

• xfm_store

  Public
  A repository to store inter-template registrations between templateflow templates

  Apache License 2.0

  •0•0•0•0•Updated Dec 9, 2024Dec 9, 2024

• migas-server

  Public
  Python

  •

  Apache License 2.0

  •1•3•5•0•Updated Oct 22, 2024Oct 22, 2024

• migas-py

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

  Python

  •

  Apache License 2.0

  •1•3•4•1•Updated Oct 21, 2024Oct 21, 2024

• buildx-repro

  Public archive
  Reproducing a bug for buildx

  Dockerfile

  •1•0•0•0•Updated Oct 11, 2024Oct 11, 2024

• mriqc-learn

  Public
  Learning on MRIQC-generated image quality metrics (IQMs).

  Python

  •

  Apache License 2.0

  •7•7•15•4•Updated Aug 20, 2024Aug 20, 2024