Repository Index

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• segmentation

Segment Anything in Medical Images

This repository includes the official project of TransUNet, presented in our paper: TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation.

Tool for robust segmentation of >100 important anatomical structures in CT and MR images

Unsupervised Learning for Image Registration

• image-registration
• image-alignment
• machine-learning
• deep-learning

Multi-platform, free open source software for visualization and image computing.

• medical-imaging
• vtk
• itk
• python

Semi Supervised Learning for Medical Image Segmentation, a collection of literature reviews and code implementations.

• semi-supervised-learning

[IEEE TMI Best Paper Award] Official Implementation for UNet++

• medical-imaging
• segmentation
• unet
• biomedical-imaging

Medical imaging processing for AI applications.

• pytorch
• medical-image-computing
• deep-learning
• data-augmentation

Many studies have shown that the performance on deep learning is significantly affected by volume of training data. The MedicalNet project provides a series of 3D-ResNet pre-trained models and relative code.

Pytorch 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation

TorchXRayVision: A library of chest X-ray datasets and models. Classifiers, segmentation, and autoencoders.

• medical-imaging
• medical-ai
• deep-learning
• machine-learning

3D medical imaging reconstruction software

• dicom
• dicom-viewer
• magnetic-resonance-imaging
• medical-image-processing

Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.

U-Net Brain Tumor Segmentation

• tensorflow
• tensorlayer
• unet
• medical-imaging

Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.

• histopathology-images
• microscopy
• sliding-windows
• medical-image-analysis

Azure friendly DICOMweb part 18 .NET server with qido-rs, wado-rs, stow-rs, wado-uri RESTful implementation

• dicom
• dicomweb
• dicomcloud
• wado

Medical LLM agent and MRI segmentation workspace built on PharmaLLM, with LangGraph, vLLM, and BEU-Net.

Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation: https://cbica.github.io/CaPTk

• cancer-imaging-research
• radiomics
• radiomics-features
• machine-learning

The implementation code for "DAGAN: Deep De-Aliasing Generative Adversarial Networks for Fast Compressed Sensing MRI Reconstruction"

• generative-adversarial-network
• mri-reconstruction
• computer-vision
• deep-learning

⚡ Open-source software for deep learning-based digital pathology

• deep-learning
• machine-learning
• digital-pathology
• computational-pathology

Axon/Myelin segmentation using Deep Learning

• deep-learning
• machine-learning
• myelin
• axon

Classification and Gradient-based Localization of Chest Radiographs using PyTorch.

• fine-tuning
• vgg16
• resnet18
• densenet121