Python Medical-informatics Resources

Blockchain-based Medical Records 📄 Abstract Blockchain has the ability to keep an incorruptible, decentralized, and transparent log of all patient da

OSS-Net: Memory Efficient High Resolution Semantic Segmentation of 3D Medical Data Christoph Reich, Tim Prangemeier, Özdemir Cetin & Heinz Koeppl | Pr

OSS-Net: Memory Efficient High Resolution Semantic Segmentation of 3D Medical Data Christoph Reich, Tim Prangemeier, Özdemir Cetin & Heinz Koeppl | Pr

CoraNet This is the 3D Implementation of 《Inconsistency-aware Uncertainty Estimation for Semi-supervised Medical Image Segmentation》 Environment pytor

The PyTorch re-implement of a 3D CNN Tracker to extract coronary artery centerlines with state-of-the-art (SOTA) performance. (paper: 'Coronary artery centerline extraction in cardiac CT angiography using a CNN-based orientation classifier')

Copy Paste positive polyp using poisson image blending for medical image segmentation According poisson image blending I've completely used it for bio

Is it Time to Replace CNNs with Transformers for Medical Images? Accepted at ICCV-2021: Workshop on Computer Vision for Automated Medical Diagnosis (C

ANTsPyNet A collection of deep learning architectures and applications ported to the python language and tools for basic medical image processing. Bas

MONAI Deploy App SDK offers a framework and associated tools to design, develop and verify AI-driven applications in the healthcare imaging domain.

A collection of papers about Transformer in the field of medical image analysis.

Breaking the Dilemma of Medical Image-to-image Translation Supervised Pix2Pix and unsupervised Cycle-consistency are two modes that dominate the field

Breaking the Dilemma of Medical Image-to-image Translation Supervised Pix2Pix and unsupervised Cycle-consistency are two modes that dominate the field

The OHSDI OMOP Common Data Model allows for the systematic analysis of healthcare observational databases.

Useful materials and tutorials for 110-1 NTU DBME5028 (Application of Deep Learning in Medical Imaging)

A 3D multi-modal medical image segmentation library in PyTorch We strongly believe in open and reproducible deep learning research. Our goal is to imp

SurRoL IROS 2021 SurRoL: An Open-source Reinforcement Learning Centered and dVRK Compatible Platform for Surgical Robot Learning Features dVRK compati

Small Lesion Segmentation in Brain MRIs with Subpixel Embedding PyTorch implementation of Small Lesion Segmentation in Brain MRIs with Subpixel Embedd

Semi-supervised-learning-for-medical-image-segmentation. Recently, semi-supervised image segmentation has become a hot topic in medical image computin

Retina Blood Vessels Segmentation This is an implementation of the research paper "Retina Blood Vessel Segmentation Using A U-Net Based Convolutional

A PyTorch implementation of V-Net Vnet is a PyTorch implementation of the paper V-Net: Fully Convolutional Neural Networks for Volumetric Medical Imag

EfficientSegmentation Introduction EfficientSegmentation is an open source, PyTorch-based segmentation framework for 3D medical image. Features A whol

MIDeepSeg: Minimally Interactive Segmentation of Unseen Objects from Medical Images Using Deep Learning [MedIA or Arxiv] and [Demo] This repository pr

Mask-RCNN on Mycobacterium tuberculosis This is an example of object detection on Mycobacterium Tuberculosis using Mask RCNN. Implement of Mask R-CNN

Mask-RCNN on Mycobacterium tuberculosis This is an example of object detection on Mycobacterium Tuberculosis using Mask RCNN. Implement of Mask R-CNN

WobblyStitcher Introduction A scalable implementation of WobblyStitcher Dependencies $ python -m pip install numpy scikit-image Visualization ImageJ

Medical image preprocessing and augmentation toolkit for deep learning. Part of the PyTorch Ecosystem.

THU模式识别2021春 -- Jittor 医学图像分割 模型列表 本仓库收录了课程作业中同学们采用jittor框架实现的如下模型： UNet SegNet DeepLab V2 DANet EANet HarDNet及其改动HarDNet_alter PSPNet OCNet OCRNet DL

CaraNet: Context Axial Reverse Attention Network for Small Medical Objects Segmentation This repository contains the implementation of a novel attenti

Deep Neural Networks Improve Radiologists' Performance in Breast Cancer Screening Introduction This is an implementation of the model used for breast

The Medical Detection Toolkit contains 2D + 3D implementations of prevalent object detectors such as Mask R-CNN, Retina Net, Retina U-Net, as well as a training and inference framework focused on dealing with medical images.

UACANet: Uncertainty Aware Context Attention for Polyp Segmentation Official pytorch implementation of UACANet: Uncertainty Aware Context Attention fo

MONAI Label is a server-client system that facilitates interactive medical image annotation by using AI. It is an open-source and easy-to-install ecosystem that can run locally on a machine with one or two GPUs. Both server and client work on the same/different machine. However, initial support for multiple users is restricted. It shares the same principles with MONAI.

PyMedPhys is an open-source Medical Physics python library built by an open community that values and prioritises code sharing, review, improvement, and learning from each other. I

Swin-Unet The codes for the work "Swin-Unet: Unet-like Pure Transformer for Medical Image Segmentation"(https://arxiv.org/abs/2105.05537). A validatio

What is nnDetection? Simultaneous localisation and categorization of objects in medical images, also referred to as medical object detection, is of hi

КЕГЭ 2021 на Python В этом репозитории мои решения типовых заданий КЕГЭ по информатике в 2021 году, БЕСПЛАТНО! Задания Взяты с https://inf-ege.sdamgia

UmlsBERT: Clinical Domain Knowledge Augmentation of Contextual Embeddings Using the Unified Medical Language System Metathesaurus General info This is

Clairvoyance: A Pipeline Toolkit for Medical Time Series Authors: van der Schaar Lab This repository contains implementations of Clairvoyance: A Pipel

Medical Image Segmentation using Squeeze-and-Expansion Transformers Introduction This repository contains the code of the IJCAI'2021 paper 'Medical Im

PRAnCER (Platform enabling Rapid Annotation for Clinical Entity Recognition) is a web platform that enables the rapid annotation of medical terms within clinical notes. A user can highlight spans of text and quickly map them to concepts in large vocabularies within a single, intuitive platform.

ViT-V-Net: Vision Transformer for Volumetric Medical Image Registration keywords: vision transformer, convolutional neural networks, image registratio

A curated list of awesome anomaly detection works in medical imaging, inspired by the other awesome-* initiatives.

Graph Evolving Meta-Learning for Low-resource Medical Dialogue Generation Code to be further cleaned... This repo contains the code of the following p

PyKale is a PyTorch library for multimodal learning and transfer learning as well as deep learning and dimensionality reduction on graphs, images, texts, and videos. By adopting a unified pipeline-based API design, PyKale enforces standardization and minimalism, via reusing existing resources, reducing repetitions and redundancy, and recycling learning models across areas.

Repository on the collaborative IVADO medical imaging project between the Mila and NeuroPoly labs.

Trove Trove is a research framework for building weakly supervised (bio)medical named entity recognition (NER) and other entity attribute classifiers

Welcome to MedicalTorch MedicalTorch is an open-source framework for PyTorch, implementing an extensive set of loaders, pre-processors and datasets fo

CheXbert: Combining Automatic Labelers and Expert Annotations for Accurate Radiology Report Labeling Using BERT CheXbert is an accurate, automated dee

A collection of loss functions for medical image segmentation

SASSnet Code for paper: Shape-aware Semi-supervised 3D Semantic Segmentation for Medical Images(MICCAI 2020) Our code is origin from UA-MT You can fin

Domain Generalization for Medical Imaging Classification with Linear Dependency Regularization The code release of paper 'Domain Generalization for Me

FedDG: Federated Domain Generalization on Medical Image Segmentation via Episodic Learning in Continuous Frequency Space by Quande Liu, Cheng Chen, Ji

CoTr: Efficient 3D Medical Image Segmentation by bridging CNN and Transformer This is the official pytorch implementation of the CoTr: Paper: CoTr: Ef

InVesalius InVesalius generates 3D medical imaging reconstructions based on a sequence of 2D DICOM files acquired with CT or MRI equipments. InVesaliu

Medical-Transformer Pytorch Code for the paper "Medical Transformer: Gated Axial-Attention for Medical Image Segmentation" About this repo: This repo

TransUNet This repo holds code for TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation Usage

Pytorch Medical Segmentation Read Chinese Introduction：Here！ Recent Updates 2021.1.8 The train and test codes are released. 2021.2.6 A bug in dice was

Context Matters: Graph-based Self-supervised Representation Learning for Medical Images Official PyTorch implementation for paper Context Matters: Gra