Bash script to compute DTI-ALPS

Gantt charts for YouTrack. Web app that builds a Gantt chart from the issues in a YouTrack saved search. Includes both the past (reconstructed from activity log) and the future (computed from issue…

Predicting the age of the brain with minimally processed T1-weighted MRI data

Multi-Scale Brain Parcellator, part of the Connectome Mapping Toolkit (CMTK), is a BIDS App that implements a full anatomical MRI processing pipeline, from raw T1w data to structural brain parcella…

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

Python toolkit for estimating asymmetric ODFs by filtering a symmetric ODF image

Segment Anything in Medical Images

ACCURATE CORRESPONDING FIBER TRACT SEGMENTATION VIA FIBERGEOMAP LEARNER

RadTract: enhanced tractometry with radiomics-based imaging biomarkers for improved predictive modelling.

Software that functionally segments white matter connections to generate task-specific subcomponents of fiber bundles.

DeepSphere: a graph-based spherical CNN (PyTorch)

DeepSphere: a graph-based spherical CNN (PyTorch)

Pytorch pipeline for 3D image domain translation using Cycle-Generative-Adversarial-networks, without paired examples.

Pytorch Geometric Tutorials

medigan - A Python Library of Pretrained Generative Models for Medical Image Synthesis

An automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images

Files needed to build a container to run all scilus flows.

Dockerfiles for FreeSurfer

Toolbox for normative modelling and spatial inference of neuroimaging data. https://pcntoolkit.readthedocs.io/en/latest/

Convert ML Code Between Frameworks

Fork of TEEM library for the Hodaie Lab

Network code for autoencoder training on dMRI pre-term newborns of the developing Human Connectome Project (dHCP)

BIDScoin converts your source-level neuroimaging data to BIDS

Connectivity algorithms that leverage the MNE-Python API.

MNE-BIDS is a Python package that allows you to read and write BIDS-compatible datasets with the help of MNE-Python.

Python tools for querying and manipulating BIDS datasets.