Medical Libraries

If you like this repository, please click on Star! If you use this package for your research, please cite our paper: BibTeX entry: This project is supported by the following institutions:

If you use DLTK in your work please refer to this citation for the current version: Setup a virtual environment and activate it. Although DLTK<=0.2.1 supports and python 2.7, we will not support i…

BibTeX entry: Copyright 2018 the NiftyNet Consortium.

The Insight Toolkit (ITK) is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration. Segmentation is the process of identifying and class…

Slicer, or 3D Slicer, is a free, open source software package for visualization and image analysis. 3D Slicer is natively designed to be available on multiple platforms, including Windows, Linux and …

This is an open-source python package for the extraction of Radiomics features from medical imaging. With this package we aim to establish a reference standard for Radiomic Analysis, and provide a te…

MedicalTorch is an open-source framework for PyTorch, implementing an extensive set of loaders, pre-processors and datasets for medical imaging.

The Common Toolkit (CTK) is a community-driven effort, focused on providing support code for medical image analysis, surgical navigation, and related projects. To work with CTK, you need to have a C+…

You can find our sources and single-click downloads: DIPY can be installed using pip: or using conda:

ITKWidgets is an elegant Python interface for visualization on the web platform to interactively generate insights into multidimensional images, point sets, and geometry. To install for all environme…

MedPy is an image processing library and collection of scripts targeted towards medical (i.e. high dimensional) image processing.

This is an open-source project welcoming your contributions. You can contribute in three ways: The development of PyKale is partially supported by the following project(s).

FAST is an open-source framework with the main goal of making it easier to do high-performance processing, neural network inference, and visualization of medical images utilizing multi-core CPUs and …

Finally the saved models are used for making predictions.Confusion Matrix is used as the Performance Metrics for this classifcation task.

A neural networks toolbox with a focus on medical image analysis in tensorflow/keras for now. If you use this code, please cite: If you are using any of the sparse/imputation functions, please cite:

Tools for tissue image stain normalization and augmentation in Python 3. Original images: Stain normalized images:

cc3d is an implementation of connected components in three dimensions using a 26, 18, or 6-connected neighborhood in 3D or 4 and 8-connected in 2D. This package uses a 3D variant of the two pass meth…

Biomedical Imaging has previously been expensive and near impossible to hack and experiment with. If more people experimented and understood how imaging works we could move it forward much faster and…

Binaries are available for some platforms. If your platform is not supported, pip will attempt to install from source, in which case follow the instructions below. The scipy EDT took about 20 seconds…

The current ways to download the archive, provided by the ISIC foundation and which are known to me, are the following: In case you choose to download segmentations of images, Note that some images h…

Implementation of the Multi-Planar U-Net as described in: Mathias Perslev, Erik Dam, Akshay Pai, and Christian Igel. One Network To Segment Them All: A General, Lightweight System for Accurate 3D Med…

Deep Reinforcement Learning (DRL) agents applied to medical images tensorpack-medical requires: New contributors of any experience level are very welcomed You can clone the latest version of the sour…

In the era of Deep Learning, developing robust machine learning solutions to problems in biomedical imaging requires access to large amounts of annotated training data, objective comparisons of state…

This Repo contains the Preprocessing Code for 3D Medical Imaging From the last year of my undergrad studies I was very queries about Biomedical Imaging. But until the starting my master I don't have …

Best effort anonymization for medical images in Python. These are basic Python based tools for working with medical images and text, specifically for de-identification. The cleaning method used here …

In this project, we extract features namely blood vessels microaneurysms and exudates for the purpose of analysing fundus images to detect signs of retinal tissue damage. The main idea is to use Imag…

Skeletons are a compact representation that can be used to visualize objects, trace the connectivity of an object, or otherwise analyze the object's geometry. Kimimaro was designed for use with high …