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This work is licensed under an MIT license, as is found in the LICENSE file.
See below how medigan can be run from the command line to generate synthetic medical images. Model information can be found in: To install the current release, simply run: Or, alternatively via conda…
This project was motivated by the need for a simple way to use, visualise, process, and analyse medical images. Many of the tools and algorithms are designed in the context of radiation therapy, alth…
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 …
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).
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 …
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:
Rejoice OpenCV users, a lightweight neuroimaging .nii to .png converter that actually works. Now supports both Python3 and Matlab 2017b! For those without Python, Pip or the modules, simply open Term…
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 …
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…
pymia is an open-source Python (py) package for deep learning-based medical image analysis (mia). The package addresses two main parts of deep learning pipelines: data handling and evaluation. The pa…
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…
This package enables you to make fast geometric transformations of images for the purpose of data augmentation in deep learning. The supported geometric transformations are These transformations can …
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…
MedicalTorch is an open-source framework for PyTorch, implementing an extensive set of loaders, pre-processors and datasets for medical imaging.
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…
Imagine speeding up research for almost every disease, from lung cancer and heart disease to rare disorders. The 2018 Data Science Bowl offers our most ambitious mission yet: create an algorithm to…
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…
Tools for tissue image stain normalization and augmentation in Python 3. Original images: Stain normalized images:
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…
BibTeX entry: Copyright 2018 the NiftyNet Consortium.
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…
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 …
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…
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:
More information is given in the packages' various vignettes and in the accompanying paper: Copyright (by period, in alphabetical order by family name; please see individual files for details) (C):
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