40 Components & Libraries
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This work is licensed under an MIT license, as is found in the LICENSE file.
Command line utility for converting images to seamless tiles. It overlays images with an alpha gradient. The resulting tiles can be used as textures in games, compositing and 3D modeling applications…
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 …
In the realm of computer vision 📷, digital image restoration and enhancement techniques have established themselves as indispensable pillars. These techniques, aiming to restore and elevate the qual…
To simply return the harmonized data, one can use the following:
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 …
Tifffile is a Python library to Image and metadata can be read from TIFF, BigTIFF, OME-TIFF, DNG, STK, LSM, SGI, NIHImage, ImageJ, MMStack, NDTiff, FluoView, ScanImage, SEQ, GEL, SVS, SCN, SIS, BIF, …
Whole-brain cell detection, registration and analysis. Basic usage: cellfinder takes a stitched, but otherwise raw whole-brain dataset with at least two channels: Classical image analysis (e.g. filte…
Polanalyser is polarization image analysis tool. Dataset of images captured by a polarization camera (FLIR, BFS-U3-51S5P-C) is available. The following code shows the example to estimate the 3x3 Muel…
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…
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…
A Python library for coordinate- and image-based meta-analysis. Currently, NiMARE implements a range of image- and coordinate-based meta-analytic algorithms, as well as several methods for advanced m…
Tools for tissue image stain normalization and augmentation in Python 3. Original images: Stain normalized images:
Welcome to SlideSeg, a python module that allows you to segment whole slide images into usable image chips for deep learning. Image masks for each chip are generated from associated markup and annota…
BibTeX entry: Copyright 2018 the NiftyNet Consortium.
starfish supports python 3.7 and above and can easily be installed from PyPI: starfish will be dropping support for python 3.6 in the next release due to minimum python=3.7 version requirements in up…
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:
Finally the saved models are used for making predictions.Confusion Matrix is used as the Performance Metrics for this classifcation task.
Rivuletpy is a Python3 toolkit for automatically reconstructing single neuron models from 3D microscopic image stacks & other tree structures from 3D medical images. It is actively maintained and…
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