Repositories list

• 250525_dipy_SP

  Public
  DIPY is the paragon 3D/4D+ medical imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistic…

  Python

  •

  Other

  •450•0•0•0•Updated Jan 9, 2026Jan 9, 2026

• 260126_seeVR_SP

  Public
  Toolbox for analyzing cerebrovascular imaging data based on BOLD MRI

  MATLAB

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  GNU General Public License v3.0

  •6•0•0•0•Updated Jan 7, 2026Jan 7, 2026

• 250612_nnUNet-Perivascular-Spaces_SP

  Public
  Python

  •

  MIT License

  •4•0•0•0•Updated Dec 19, 2025Dec 19, 2025

• 251231_nnUNet_SP

  Public
  Python

  •

  Apache License 2.0

  •2.3k•0•0•0•Updated Dec 18, 2025Dec 18, 2025

• 260111_Body-and-Organ-Analysis_SP

  Public
  BOA is a segmentation tool of CT scans by the SHIP-AI group (https://ship-ai.ikim.nrw/). Combining the TotalSegmentator and the Body Composition Analysis, this …

  Python

  •

  Apache License 2.0

  •12•0•0•0•Updated Nov 7, 2025Nov 7, 2025

• 250927_MARS-WMH_SP

  Public
  State-of-the-art, deep learning-based segmentation of brain white matter hyperintensities (of presumed vascular origin) on MRI

  Python

  •

  Other

  •2•0•0•0•Updated Sep 15, 2025Sep 15, 2025

• 241119_spinalcordtoolbox_SP

  Public
  Comprehensive and open-source library of analysis tools for MRI of the spinal cord.

  Python

  •

  GNU Lesser General Public License v3.0

  •114•0•0•0•Updated Sep 5, 2025Sep 5, 2025

• 250905_Functional_connectivity_analysis_coupled_with_blood_biomarkers_data_SP

  Public
  Analysis of functional MRI and blood biomarkers (Tau p217)

  MATLAB

  •1•0•0•0•Updated Sep 3, 2025Sep 3, 2025

• 250902_neuroHarmonize_SP

  Public
  Harmonization tools for multi-site neuroimaging analysis. Implemented as a python package. Harmonization of MRI, sMRI, dMRI, fMRI variables with support for NIF…

  Python

  •

  MIT License

  •35•0•0•0•Updated Sep 1, 2025Sep 1, 2025

• 250706_osprey_SP

  Public
  All-in-one toolbox for processing of magnetic resonance spectroscopy data.

  MATLAB

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  MIT License

  •44•0•0•0•Updated Aug 26, 2025Aug 26, 2025

• 04_Gannet_SP

  Public
  Gannet is a free, open-source MATLAB-based software toolkit for analyzing edited 1H magnetic resonance spectroscopy (MRS) data.

  MATLAB

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  BSD 3-Clause "New" or "Revised" License

  •14•0•0•0•Updated Aug 26, 2025Aug 26, 2025

• 250613_lobi-mri-scripts_SP

  Public
  Various configurations available for dcm2bids or heudiconv

  Python

  •1•0•0•0•Updated Aug 23, 2025Aug 23, 2025

• 250613_HCPpipelines_SP

  Public
  Processing pipelines for the HCP

  Shell

  •

  Other

  •285•0•0•0•Updated Aug 23, 2025Aug 23, 2025

• 250823_deepinv_SP

  Public
  DeepInverse: a PyTorch library for solving imaging inverse problems using deep learning

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •135•0•0•0•Updated Aug 21, 2025Aug 21, 2025

• 250826_FastSurfer_SP

  Public
  PyTorch implementation of FastSurferCNN

  Jupyter Notebook

  •

  Apache License 2.0

  •144•0•0•0•Updated Aug 14, 2025Aug 14, 2025

• 250808_QSMxT_SP

  Public
  QSMxT is an end-to-end software toolbox for Quantitative Susceptibility Mapping.

  Python

  •

  GNU General Public License v3.0

  •17•0•0•0•Updated Aug 8, 2025Aug 8, 2025

• 250902_RadQy_SP

  Public
  RadQy is a quality assurance and checking tool for quantitative assessment of magnetic resonance imaging (MRI) and computed tomography (CT) data.

  JavaScript

  •37•0•0•0•Updated Aug 6, 2025Aug 6, 2025

• 250819_DentateSeg_SP

  Public
  Shell

  •1•0•0•0•Updated Aug 1, 2025Aug 1, 2025

• 250819_Synb0-DISCO_SP

  Public
  Distortion correction of diffusion weighted MRI without reverse phase-encoding scans or field-maps

  Python

  •

  MIT License

  •34•0•0•0•Updated Jul 31, 2025Jul 31, 2025

• 250616_JHUKKI_QSM_Toolbox_SP

  Public
  MATLAB

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  BSD 2-Clause "Simplified" License

  •3•0•0•0•Updated Jul 29, 2025Jul 29, 2025

• 250803_sepia_SP

  Public
  Matlab GUI pipeline application for quantitative susceptibility mapping (QSM)

  MATLAB

  •

  MIT License

  •16•0•0•0•Updated Jul 19, 2025Jul 19, 2025

• 250816_qMRLab_SP

  Public
  Quantitative MRI Made Easy with qMRLab: MRI software for data Simulation, analysis and visualization

  MATLAB

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  MIT License

  •61•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• 250901_ENIGMA_SP

  Public
  The ENIGMA Toolbox is an open-source repository for accessing 100+ ENIGMA statistical maps, visualizing cortical and subcortical surface data, and relating neur…

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •46•0•0•0•Updated Jul 14, 2025Jul 14, 2025

• 240620_4DFlowPWVTool_SP

  Public
  a Matlab-based 4D flow MRI tool for measuring pulse wave velocity in the aorta

  MATLAB

  •4•0•0•0•Updated Jul 11, 2025Jul 11, 2025

• 240630_The-Art-of-Linear-Algebra_SP

  Public
  Graphic notes on Gilbert Strang's "Linear Algebra for Everyone"

  PostScript

  •

  Creative Commons Zero v1.0 Universal

  •2.5k•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• 2405_pyradiomics_SP

  Public
  Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/ra…

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •538•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• 240620_FlowProcessing_SP

  Public
  Flow Processing app (Matlab) for PROUD 4D flow data

  MATLAB

  •

  Other

  •1•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• 240620_4D-Flow-Matlab-Toolbox_SP

  Public
  This repository contains a protected MATLAB toolbox that allows the quantification of a series of hemodynamic parameters, from 4D flow data obtained by cardiova…

  MATLAB

  •4•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• 240705_ROCKETSHIP_SP

  Public
  Dynamic Contrast Enhanced (DCE) MRI Analysis Software

  MATLAB

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  GNU General Public License v2.0

  •15•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• 240909_afni_SP

  Public
  Official AFNI source and documentation

  C

  •

  Other

  •114•0•0•0•Updated Jul 10, 2025Jul 10, 2025