A command line tool to transform a DICOM volume into a 3d surface mesh (obj, stl or ply). Several mesh processing routines can be enabled, such as mesh reduction, smoothing or cleaning. Works on Linux, OSX and Windows.

COVID-19 Detection Chest X-rays and CT scans: COVID-19 Detection based on Chest X-rays and CT Scans using four Transfer Learning algorithms: VGG16, ResNet50, InceptionV3, Xception. The models were trained for 500 epochs on around 1000 Chest X-rays and around 750 CT Scan images on Google Colab GPU. A Flask App was later developed wherein user can upload Chest X-rays or CT Scans and get the output of possibility of COVID infection.

An official implementation of PCRLv2 (pre-training and fine-tuning code are included).

AiAi.care project is teaching computers to "see" chest X-rays and interpret them how a human Radiologist would. We are using 700,000 Chest X-Rays + Deep Learning to build an FDA 💊 approved, open-source screening tool for Tuberculosis and Lung Cancer. After an MRMC clinical trial, AiAi CAD will be distributed for free to emerging nations, charitable hospitals, and organizations like WHO 🌏 We will also release our pretrained models and weights as Medical Imagenet.

Image-based COVID-19 diagnosis. Links to software, data, and other resources.

End-to-end Python CT volume preprocessing pipeline to convert raw DICOMs into clean 3D numpy arrays for ML. From paper Draelos et al. "Machine-Learning-Based Multiple Abnormality Prediction with Large-Scale Chest Computed Tomography Volumes."

Fully automated code for Covid-19 detection from CT scans from paper: https://doi.org/10.1016/j.bspc.2021.102588

:twisted_rightwards_arrows: Medical software for Processing multi-Parametric images Pipelines

Machine learning models for multi-organ, multi-disease prediction in chest CT volumes. From paper Draelos et al. "Machine-Learning-Based Multiple Abnormality Prediction with Large-Scale Chest Computed Tomography Volumes."

Deep CNN for performing 3D super resolution on CT/MRI scans

Segmentation and Classification models for COVID CT scans (COVID, pneumonia, normal) based on Mask R-CNN.

A simple privacy-focused web panel in flask for labeling CT Scan's slices

CTSegNet is an end-to-end 3D segmentation package for large X-ray tomographic datasets using 2D fully convolutional neural networks (fCNN).

CNN's for bone segmentation of CT-scans.

A COVID-19 CT Scan Dataset Applicable in Machine Learning and Deep Learning

Idiopathic pulmonary fibrosis (IPF) is a restrictive interstitial lung disease that causes lung function decline by lung tissue scarring. Although lung function decline is assessed by the forced vital capacity (FVC), determining the accurate progression of IPF remains a challenge. To address this challenge, we proposed Fibro-CoSANet, a novel end-to-end multi-modal learning-based approach, to predict the FVC decline. Fibro-CoSANet utilized CT images and demographic information in convolutional neural network frameworks with a stacked attention layer. Extensive experiments on the OSIC Pulmonary Fibrosis Progression Dataset demonstrated the superiority of our proposed Fibro-CoSANet by achieving the new state-of-the-art modified Laplace Log-Likelihood score of -6.68. This network may benefit research areas concerned with designing networks to improve the prognostic accuracy of IPF.

This is the official repository for Fast-nnUNet, a new fast model inference framework based on the nnUNet framework implementation.

No description provided.

Unity3d Prototype to manipulate Hounsfield units and create a 3D render of dicom images

A Unity scene setup that generates a 3D Texture from a series of CT scans and turn it into a volume of particles

A repository containing deep learning models and evaluation methods for enhancing medical image segmentation in Computed Tomography (CT) scans, with a focus on U-Net variants, nnUNet, and Swin-UNet architectures.

View volumetric (3D) medical images in Jupyter notebooks

Reconstruction of medical image data using DICOM format input data

PyTorch implementation of 3D U-Net for kidney and tumor segmentation from KiTS19 CT scans.

U-Net for biomedical image segmentation

In-depth motion analysis of mobile lung cancer tumors. Designed for 4D-CT scans of the thorax and provide valuable information for proton therapy treatment planning

Deep Learning Project which help us to identify a Person is Covid or non-Covid and Segment the Infection in the Lungs.

Workflow-centred open-source fully automated lung volumetry in chest CT.

Software for processing output of Scanco uCT machines/ any ISQ or TIF producing machine, and producing data. See instructions.pdf for full explaination.

A GUI tool for visualizing 3D CT scans with ground truth and predicted segmentation overlays. The viewer allows for easy navigation through slices and adjustment of CT scan intensities. Perfect for medical image analysis and comparison of segmentation results.