Diffusion Mri Python Packages

dipy

DIPY is the paragon 3D/4D+ medical imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.

gradlint

Fast gradient-scheme QC, b-vector flip detection, and repair for diffusion MRI and tractography pipelines.

qsiprep

Preprocessing of diffusion MRI

nlsam

The reference implementation for the Non Local Spatial and Angular Matching (NLSAM) denoising algorithm for diffusion MRI

qsiprep-container

Preprocessing of diffusion MRI

autodmri

Automated characterization of noise distributions in diffusion MRI data

ivimnet

This repository contains the code regarding our publication: Improved unsupervised physics-informed deep learning for intravoxel-incoherent motion modeling and evaluation in pancreatic cancer patients

pipetography

Nipype and tractography!

dpr

Diffusion profile realignment - Making your along-tract analysis reliable

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.

eddymotion

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

erwin

Quantitative MRI toolbox in Python

dkmri

Reproducible and efficient diffusion kurtosis imaging in Python.

dvoryan

Reproducible and efficient diffusion kurtosis imaging in Python.

disimpy

Massively parallel Monte Carlo diffusion MR simulator written in Python.

tide-pipeline

TIDE is a SimNIBS-based research pipeline for tractography-informed estimation of individualised TMS intensity using motor-threshold calibration and the activating function.

pydesigner-dwi

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

utracto

Package facilitating the tracking of sub-cortical U-Fibers

dkmri-win

Reproducible and efficient diffusion kurtosis imaging in Python.