NeuroImaging PREProcessing toolS

fmriprep

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.

mriqc

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

smriprep

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

niworkflows

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

dmriprep

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.

sdcflows

Susceptibility Distortion Correction (SDC) workflows for EPI MR schemes

nibabies

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

fmriprep-rodents

fMRIPrep for Rodents

eddymotion

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

nipreps-book

sops-cookiecutter

Template repo for bootstrapping and maintaining SOPs (Standard operation procedures)

nireports

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

fmripost-aroma

Run ICA-AROMA on fMRIPrep derivatives

fmriprep_stats

Automatic reports summarizing usage stats from Sentry.io

mriqc-learn

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

migas-server

qkay

Manager for the quality assessment of large neuroimaging studies

.github

Shared community health files

GOVERNANCE

The NiPreps Community's Governance Documents

migas-py

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

nipreps.github.io

The NiPreps landing page

petprep

PETPrep: A Robust Preprocessing Pipeline for PET Data

petqc

PETQC: image quality metrics for quality assessment of PET data

version-schemes

setuptools_scm plugin for nipreps version schemes

resampler

Single-shot resampling utility for nipreps derivatives

skeleton

A generic project skeleton for Python projects.

synthstrip

Synthstrip integration to be used across nipreps

202405-sprint

Nipreps sprint, Cambridge, MA, May 15-17, 2024

gradunwarp

fork of HCP gradunwarp tool for Gradient Unwarping in Python

nipreps

The official NiPreps Python module