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@muscbridge Brain Imaging Diffusion Group (BRIDGE) Lab

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    22 repositories

    • freesurfer-6.0-docker

      Public
      Shell
      •
      Other
      •0•0•0•0•Updated Jan 5, 2026Jan 5, 2026

    • PyDesigner

      Public
      A hands-free DTI, DKI, FBI and FBWM preprocessing pipeline. Information on algorithms and preprocessing steps are available at https://www.biorxiv.org/content/10.1101/2021.10.20.465189v1 A video tutorial on PyDesigner and its usage is now available at https://www.youtube.com/watch?v=mChQFuQqX3k
      dwidiffusion-mapsdiffusion-mritractographydiffusion-preprocessingkurtosisdmridmriprep
      Python
      •
      Other
      •7•30•13•3•Updated Sep 9, 2025Sep 9, 2025

    • ci-cd

      Public
      CI/CD scripts and builds for MUSC-BRIDGE application development
      0•0•0•0•Updated Apr 12, 2025Apr 12, 2025

    • DP-DKI

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • miQglia

      Public
      A set of MATLAB scripts for quantification of microglia images acquired through brightfield microscopy.
      MATLAB
      •
      Mozilla Public License 2.0
      •0•0•0•0•Updated Jan 3, 2023Jan 3, 2023

    • FBWM

      Public
      Fiber ball white matter modeling
      MATLAB
      •2•1•1•0•Updated Mar 9, 2022Mar 9, 2022

    • DKE

      Public
      The Diffusional Kurtosis Estimator (DKE) is software for processing Diffusional Kurtosis Imaging (DKI) data
      MATLAB
      •
      Other
      •4•8•0•0•Updated Mar 2, 2022Mar 2, 2022

    • ARTDock

      Public
      Docker container for Babak Ardekani's automatic registration toolbox
      Jupyter Notebook
      •
      Mozilla Public License 2.0
      •0•0•1•0•Updated Feb 4, 2022Feb 4, 2022

    • dTractSeg

      Public
      A TractSeg pipeline compatible with PyDesigner outputs
      Jupyter Notebook
      •
      Mozilla Public License 2.0
      •0•6•0•0•Updated Aug 28, 2020Aug 28, 2020

    • TractSeg

      Public
      Automatic White Matter Bundle Segmentation
      Python
      •
      Apache License 2.0
      •78•0•0•0•Updated Jun 5, 2020Jun 5, 2020

    • makedt6frompyd

      Public
      Docker container to convert PyDesigner outputs to AFQ's dt6.mat
      Dockerfile
      •
      Mozilla Public License 2.0
      •0•0•0•0•Updated May 7, 2020May 7, 2020

    • mcr-v98

      Public
      Matlab (C) Runtime for Matlab R2020a (v.9.8) in Docker
      Dockerfile
      •
      MIT License
      •0•0•0•0•Updated May 7, 2020May 7, 2020

    • mcr-v97

      Public
      Matlab (C) Runtime for Matlab R2019b (v.9.7) in Docker
      Dockerfile
      •
      Mozilla Public License 2.0
      •1•1•1•0•Updated May 7, 2020May 7, 2020

    • FBI

      Public
      Fiber Ball Imaging (FBI) for white matter quantification
      MATLAB
      •1•0•0•0•Updated May 5, 2020May 5, 2020

    • afq

      Public
      Automated Fiber Quantification
      MATLAB
      •1•0•0•0•Updated Apr 30, 2020Apr 30, 2020

    • DCMReporter

      Public
      A Python CLI to analyze integrity of scans in a study
      Python
      •
      Mozilla Public License 2.0
      •0•0•0•0•Updated Feb 26, 2020Feb 26, 2020

    • comprssr

      Public
      A Python CLI to compress studies into multi-part ZIP files with folder hierarchy preservation
      Python
      •
      Mozilla Public License 2.0
      •0•0•0•0•Updated Dec 24, 2019Dec 24, 2019

    • m-ama.github.io

      Public
      MAMA's website
      CSS
      •
      MIT License
      •2.7k•0•0•0•Updated Nov 21, 2019Nov 21, 2019

    • EnigmaNet

      Public
      A neural network trained and optimized for discrimination of epileptic subjects and its subclasses from healthy subjects
      Jupyter Notebook
      •0•0•1•0•Updated Oct 9, 2019Oct 9, 2019

    • nii_preprocess

      Public
      MATLAB
      •10•0•0•0•Updated Aug 26, 2019Aug 26, 2019

    • docker-designer

      Public
      Designer compiled for docker integration
      Python
      •0•0•0•0•Updated Jun 6, 2019Jun 6, 2019

    • Mice-ROI-Processing

      Public
      Script designed to extract parameters from DKI maps based on ImageJ-drawn ROIs
      MATLAB
      •1•1•0•0•Updated Mar 8, 2019Mar 8, 2019