nipreps/nifreeze

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

Language: Python - Size: 120 MB - Last synced at: 1 day ago - Pushed at: 7 days ago - Stars: 5 - Forks: 5

ewanwalker/Automated-Lesion-Masking-Script

My dissertation code, for Automatically delineating brain lesions from MRI scans and using tractography to predict downstream effects of the brain lesion

Language: Shell - Size: 691 KB - Last synced at: 2 days ago - Pushed at: 10 days ago - Stars: 1 - Forks: 0

dPys/PyNets

A Reproducible Workflow for Structural and Functional Connectome Ensemble Learning

Language: Python - Size: 1010 MB - Last synced at: 6 days ago - Pushed at: over 1 year ago - Stars: 123 - Forks: 41

PennLINC/qsirecon

Reconstruction of preprocessed q-space images (dMRI)

Language: Python - Size: 179 MB - Last synced at: 1 day ago - Pushed at: 18 days ago - Stars: 12 - Forks: 12

connectomicslab/connectomemapper3

Connectome Mapper 3 is a BIDS App that implements full anatomical, diffusion, resting/state functional MRI, and recently EEG processing pipelines, from raw T1 / DWI / BOLD , and preprocessed EEG data to multi-resolution brain parcellation with corresponding connection matrices.

Language: HTML - Size: 354 MB - Last synced at: 3 days ago - Pushed at: 4 months ago - Stars: 74 - Forks: 30

dipy/workshop.dipy.org

The DIPY Workshop website

Language: CSS - Size: 43.3 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 0 - Forks: 2

Hyedryn/elikopy

ElikoPy is Python library aiming at easing the processing of diffusion imaging for microstructural analysis.

Language: Python - Size: 4.52 MB - Last synced at: 6 days ago - Pushed at: about 1 month ago - Stars: 18 - Forks: 5

oscarjalnefjord/ivim

An end-to-end python package for intravoxel incoherent motion (IVIM) analysis of diffusion MRI data

Language: Python - Size: 102 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 1

MIC-DKFZ/MITK-Diffusion

MITK Diffusion - Official part of the Medical Imaging Interaction Toolkit

Language: C++ - Size: 15.9 MB - Last synced at: 2 months ago - Pushed at: about 1 year ago - Stars: 93 - Forks: 15

muscbridge/PyDesigner

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

Language: Python - Size: 47.8 MB - Last synced at: 21 days ago - Pushed at: 4 months ago - Stars: 29 - Forks: 7

carpentries-incubator/SDC-BIDS-dMRI

Introduction to dMRI

Language: Jupyter Notebook - Size: 48.3 MB - Last synced at: 1 day ago - Pushed at: 5 days ago - Stars: 26 - Forks: 19

umn-milab/qmri-ald

Image analysis pipelines of qunatitative MRI (qMRI), including diffusion MRI (dMRI), in patients with adrenoleukodystrophy (ALD)

Language: MATLAB - Size: 559 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

LaSEEB/structural-connectivity

Code to create structural connectivity matrix from preprocessed DWI and structural MRI data.

Language: Shell - Size: 19.5 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

treanus/KUL_NIS

KUL/UZ NeuroImaging Suite. A set of tools for brain and spine MRI analysis.

Language: Shell - Size: 742 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 19 - Forks: 12

SlicerDMRI/whitematteranalysis

White matter tractography clustering and more...

Language: Python - Size: 203 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 72 - Forks: 34

SlicerDMRI/wmap

White Matter Analysis Pipeline (WMAP)

Language: Python - Size: 137 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

SlicerDMRI/slicerdmri.github.io

SlicerDMRI organization website repository

Language: TeX - Size: 428 MB - Last synced at: 1 day ago - Pushed at: 6 months ago - Stars: 0 - Forks: 3

delucaal/MRIToolkit

Language: MATLAB - Size: 8.46 MB - Last synced at: 6 months ago - Pushed at: 9 months ago - Stars: 25 - Forks: 4

DiffusionMRITool/spherical_uniform_sampling

This code is used to optimize single or multiple shell uniform sampling schemes in diffusion MRI via continuous optimization and discrete optimization.

Language: Python - Size: 144 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 2 - Forks: 0

TylerSpears/fenri

FENRI (Fiber Orientations from Explicit Neural Representations) Implementation Repository, presented at the ISBI 2024 conference

Language: Jupyter Notebook - Size: 43 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 0

brain-microstructure-exploration-tools/abcd-registration-experiments

experiments with diffusion image registration

Language: Jupyter Notebook - Size: 1.04 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 1

brain-microstructure-exploration-tools/abcd-noddi-tbss-experiments

experiments with neuroimaging pipelines that use noddi and tbss

Language: Python - Size: 144 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

lorifranke/FiberStars

Source code for FiberStars, a visualization tool for comparing dMRI data of multiple subjects.

Language: JavaScript - Size: 94 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 5 - Forks: 1

christiennedamatac/tracula

Scripts related to "White Matter Microstructure in Attention-Deficit/Hyperactivity Disorder: A Systematic Tractography Study in 654 Individuals"

Language: Shell - Size: 12.7 KB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0

christiennedamatac/longitudinal_tract_based_spatial_statistics

Scripts related to "Associations between attention-deficit hyperactivity disorder (ADHD) symptom remission and white matter microstructure: A longitudinal analysis"

Language: Shell - Size: 6.84 KB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

christiennedamatac/fixel_based_analysis

Scripts related to "Longitudinal changes of ADHD symptoms in association with white matter microstructure: A tract-specific fixel-based analysis"

Language: Shell - Size: 29.3 KB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0

SlicerDMRI/ORG-Atlases

ORG Fiber Clustering White Matter Atlas

Size: 1.46 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 23 - Forks: 6

scil-vital/tractolearn

Tractography learning

Language: Python - Size: 576 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 5 - Forks: 4

KUL-Radneuron/KUL_FWT

Automated tractography using MRTrix3 CSD based on subject-specific parcellations from FreeSurfer and MultiScaleBrainParcellator

Language: Shell - Size: 366 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 4

brightside51/dMRI_cGen

MSc Thesis on Conditional dMRI Generative AI Models and their applicability in the decreasing scan acquisition times and bettering of patient's quality of life.

Language: Jupyter Notebook - Size: 182 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 0

JonGant/DWIS

Diffusion Weighted Image Simulator

Language: Python - Size: 131 KB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0

3Tissue/MRtrix3Tissue Fork of MRtrix3/mrtrix3

MRtrix3Tissue adds capabilities for 3-Tissue CSD modelling and analysis to a complete version of MRtrix3.

Language: C++ - Size: 24.3 MB - Last synced at: almost 2 years ago - Pushed at: almost 5 years ago - Stars: 8 - Forks: 5

micerr/Epilepsy-dMRI-VNS

Assessing microstructural brain differences in epileptic patients with vagus nerve stimulation via diffusion MRI, tractography and machine learning

Language: Jupyter Notebook - Size: 270 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

SlicerDMRI/tutorials

SlicerDMRI tutorial repository

Language: HTML - Size: 495 MB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 1

teanijarv/MAPMRI-pype

Python pipeline for analyzing diffusion MRI data using MAPMRI.

Language: Python - Size: 10.7 KB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

mdausort/TFE22-540

Codes of my master thesis

Language: Python - Size: 13.9 MB - Last synced at: 12 days ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1

DelinteNicolas/TractAnalysis

Analysis of the structural connectivity of diffusion data

Language: Python - Size: 7.42 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

brainhack-school2023/subramani_Romy_project

This repository contains the code and documentation for the Brainhack School project on exploring the structure-function coupling and segregation analysis in video-watching electroencephalography (EEG) data. The project aims to investigate how the electrophysiological activity during video-watching is related to the underlying anatomical structure

Language: Python - Size: 1.6 MB - Last synced at: about 2 months ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1

multinetlab-amsterdam/data_preprocessing

This repo contains preprocessing scripts used in the lab, organized (mainly) by imaging modality.

Language: Jupyter Notebook - Size: 23.7 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

GewoonMaarten/spherical-dmri-conv

Sub-sampling on multi-dimensional diffusion MRI with rotation equivariance.

Language: Jupyter Notebook - Size: 7.28 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

la-boite/diffusion_ODF

Size: 14.6 KB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

drombas/streamlines-gsoc

Experiments related with streamlines carried out as part of GSoC 2021.

Language: Jupyter Notebook - Size: 12.9 MB - Last synced at: over 2 years ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

renelabounek/sc-dmri-myelopathy

Folder containing all implemented or developed quantitative spinal cord imaging pipelines and data analyses

Language: MATLAB - Size: 1.03 MB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

zhangjb35/jinbo_brain_book

Record all learned knowledge of MRI

Language: Python - Size: 4.88 KB - Last synced at: 10 months ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

karanaggarwal1994/life-gpu-opt

LiFE-GPU-opt software is an optimized implementation of the compute-intensive matrix operations of the LiFE algorithm for GPUs.

Language: MATLAB - Size: 129 KB - Last synced at: over 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0