sft110

AMDF

BayesfMRI

BayesfMRI R package

brain-segmentation-pytorch

U-Net implementation in PyTorch for FLAIR abnormality segmentation in brain MRI

brainchop

Brainchop: In-browser 3D MRI rendering and segmentation

fMRI_analysis

fmriprep

fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

freesurfer

Neuroimaging analysis and visualization suite

graph-based-deep-learning-literature

links to conference publications in graph-based deep learning

intensity-normalization

normalize the intensities of various MR image modalities

lightning-hydra-template

PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡

llm-python

Large Language Models (LLMs) tutorials & sample scripts, ft. langchain, openai, llamaindex, gpt, chromadb & pinecone

mDDPM

Unsupervised Anomaly Detection in Medical Images Using Masked Diffusion Model

MRI-preprocessing-techniques

Code examples of the free course in Youtube of brain MRI preprocessing techniques in python

MRIcroGL

v1.2 GLSL volume rendering. Able to view NIfTI, DICOM, MGH, MHD, NRRD, AFNI format images.

nilearn

Machine learning for NeuroImaging in Python

nnUNet

patched-Diffusion-Models-UAD

pySuStaIn

Subtype and Stage Inference (SuStaIn) algorithm with an example using simulated data.

pytorch-deep-learning

Materials for the Learn PyTorch for Deep Learning: Zero to Mastery course.

pytorch-frame

Tabular Deep Learning Library for PyTorch

Radiology_Image_Preprocessing_for_Deep_Learning

A Quick Guide on Radiology Image Pre-processing for Deep Learning Applications in Prostate Cancer Research

smriprep

Structural MRI PREProcessing (sMRIPrep) workflows for NIPreps (NeuroImaging PREProcessing tools)

sologen-ai.github.io

StRegA

StRegA: Unsupervised anomaly detection in brain MRIs using a compact context-encoding variational autoencoder

TransBTS

This repo provides the official code for : 1) TransBTS: Multimodal Brain Tumor Segmentation Using Transformer (https://arxiv.org/abs/2103.04430) , accepted by MICCAI2021. 2) TransBTSV2: Towards Better and More Efficient Volumetric Segmentation of Medical Images(https://arxiv.org/abs/2201.12785).

tutorial

MONAI Tutorials

Unsupervised_Anomaly_Detection_Brain_MRI

Autoencoders for Unsupervised Anomaly Segmentation in Brain MR Images: A Comparative Study

vit_ae_plus_plus

Code base for the paper ViT-AE++: Improving Vision Transformer Autoencoder for Self-supervised Medical Image Representations

workshop_pybrain

yAwareContrastiveLearning

Official Pytorch Implementation for y-Aware Contrastive Learning