Repositories list

• niworkflows

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

  Python

  •

  Apache License 2.0

  •52•91•62•11•Updated Feb 14, 2025Feb 14, 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

  •297•649•305•12•Updated Feb 12, 2025Feb 12, 2025

• nireports

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

  Python

  •

  Apache License 2.0

  •19•9•16•6•Updated Feb 12, 2025Feb 12, 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

  •27•34•33•5•Updated Feb 9, 2025Feb 9, 2025

• fmripost-template

  Public template
  A generic fMRIPost workflow

  Python

  •

  Apache License 2.0

  •0•0•5•1•Updated Feb 6, 2025Feb 6, 2025

• 202504-sprint

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

  HTML

  •

  Creative Commons Zero v1.0 Universal

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

• nibabies

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

  neuroimagingfmriinfant

  Python

  •

  Apache License 2.0

  •11•27•36•2•Updated Feb 5, 2025Feb 5, 2025

• nipreps.github.io

  Public
  The NiPreps landing page

  Python

  •

  Creative Commons Zero v1.0 Universal

  •11•3•6•1•Updated Feb 5, 2025Feb 5, 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

  •132•310•56•2•Updated Feb 4, 2025Feb 4, 2025

• fmriprep_stats

  Public
  Automatic reports summarizing usage stats from Sentry.io

  Jupyter Notebook

  •1•4•0•1•Updated Feb 4, 2025Feb 4, 2025

• fmripost-phase

  Public
  An attempt at an fMRIPost workflow for handling phase data

  fmrifmriprepfmri-preprocessing

  Python

  •

  Apache License 2.0

  •1•3•13•0•Updated Feb 2, 2025Feb 2, 2025

• fmripost-aroma

  Public
  Run ICA-AROMA on fMRIPrep derivatives

  Python

  •

  Apache License 2.0

  •2•10•18•2•Updated Feb 2, 2025Feb 2, 2025

• fmripost-rapidtide

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

  Python

  •

  Apache License 2.0

  •1•2•12•1•Updated Feb 2, 2025Feb 2, 2025

• nifreeze

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

  Python

  •

  Apache License 2.0

  •3•2•19•9•Updated Jan 28, 2025Jan 28, 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•15•0•5•Updated Jan 27, 2025Jan 27, 2025

• NORDIC_Raw

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

  MATLAB

  •

  Other

  •26•0•0•0•Updated Jan 3, 2025Jan 3, 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

  •40•136•57•6•Updated Dec 23, 2024Dec 23, 2024

• 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

• acres

  Public
  Data-loading utility for Python

  Python

  •

  Apache License 2.0

  •1•0•1•0•Updated Dec 9, 2024Dec 9, 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

• synthstrip

  Public
  Synthstrip integration to be used across nipreps

  Python

  •

  Apache License 2.0

  •1•8•0•0•Updated Aug 29, 2024Aug 29, 2024

• mriqc-learn

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

  Python

  •

  Apache License 2.0

  •6•6•15•4•Updated Aug 20, 2024Aug 20, 2024

• niprepspype

  Public
  Ni[Preps]Pype: Workflows and interfaces for neuroimaging packages -- adaptation of NiPype to NiPreps

  Python

  •

  Other

  •532•0•0•0•Updated Aug 1, 2024Aug 1, 2024

• nirodents

  Public
  Python

  •

  Apache License 2.0

  •3•13•8•0•Updated Jul 2, 2024Jul 2, 2024

• .github

  Public
  Shared community health files

  Creative Commons Zero v1.0 Universal

  •1•2•2•0•Updated Jun 12, 2024Jun 12, 2024

• gradunwarp

  Public
  fork of HCP gradunwarp tool for Gradient Unwarping in Python

  Python

  •

  Other

  •37•0•2•0•Updated May 17, 2024May 17, 2024

• qkay

  Public
  Manager for the quality assessment of large neuroimaging studies

  HTML

  •

  Apache License 2.0

  •3•4•13•4•Updated May 13, 2024May 13, 2024