Search Results for "image segmentation"
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Showing 34 open source projects for "image segmentation"
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GeoDMA
Geographic feature extraction and data mining
GeoDMA is a plugin for TerraView software, used for geographical data mining. With a single image, the user can perform segmentation, attributes extraction, normalization and classification. -
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The MITK Workbench is a free, open-source application for medical image visualization, segmentation, registration, and much more. Beyond the Workbench application, MITK is a comprehensive C++ framework for medical image computing. It provides a modular foundation for extending the MITK Workbench with custom plugins or developing your own medical imaging applications and research prototypes.
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Insight Toolkit (ITK). ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions. New location: https://github.com/InsightSoftwareConsortium/ITK
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ShinyCardinal
Mass spectrometry imaging data analysis software tool
ShinyCardinal is an open-source and vendor-neutral software that covers all steps in MSI data analysis. It leverages the R package Cardinal to enhance its functionalities by introducing several additional important features, such as the removal of background noises and matrix peaks, deisotoping, absolute quantification, network analysis, and metabolite identification. ShinyCardinal is built as a desktop application with a conveniently designed graphic user interface to provide users a... -
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ProStack
ProStack - a platform for image processing and analysis
ProStack - a platform for image processing and analysis. It implements various image processing methods as separate modules, that can be joined in a complex image processing scenario by use of a graphical user interface. RPMs are available at https://build.opensuse.org/project/repositories/home:mackoel:compbio -
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tdsft
TDSFT (Two-Dimensional Segmentation Fusion Tool)
Given multiple segmentations related to the same tumor, statistical metrics could be exploited to determine the most reliable one, from there identified as ground truth. Numerous algorithms have been developed over time, but to date, there is no validated method for this procedure. Therefore, research is still active in this area. Two-Dimensional Segmentation Fusion Tool (TDSFT) is an open-source tool developed in MATLAB and distributed as a standalone application for MAC, Linux, and... -
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Semantic Segmentation Editor
Web labeling tool for bitmap images and point clouds
A web-based labeling tool for creating AI training data sets (2D and 3D). The tool has been developed in the context of autonomous driving research. It supports images (.jpg or .png) and point clouds (.pcd). It is a Meteor app developed with React, Paper.js, and three.js. -
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TOFSIMS
R/Bioconductor toolkit for mass spectrometry data
...It also interoperates with Bioconductor’s imaging stack (e.g. EBImage) so users can apply segmentation and image analysis operations on mass images. -
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Composight is a cross-platform toolkit for 3D-image processing in the domain of composite materials science. It is written in C++ and provides small, problem-specific applications for viewing, filtering and segmentation of volumetric data such as micro-CT scans. The main objective is not to provide yet another complex application for volume data visualization and medical image processing.
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WrapImaJ
Multi-platform API for Image Processing systems in Life Sciences
WrapImaJ purposes to be a multi-platform wrapper for different Image Processing systems for: - using the Java programming language. The purpose of WrapImaJ is not to combine an exhaustive collection of all functionalities of different imaging system, but to offer a simple, concise Application Programming Interface (API) - allowing to develop imaging software, the source code of which is independent from the underlying imaging system on which it relies. In it's current form, it... -
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3DimViewer
3DimViewer is a lightweight 3D viewer of medical DICOM datasets.
3DimViewer is a lightweight 3D viewer of medical DICOM datasets that is distributed as open source software. The viewer is multiplatform software written in C++ that runs on Windows, Mac OS X and Linux systems. 3DimViewer source codes are available on Bitbucket (https://bitbucket.org/3dimlab/3dimviewer). Video tutorials can be found on YouTube (https://www.youtube.com/playlist?list=PLCvwUmKRw9ZO4YexLKEXmw_2jPo-kXVRn). -
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Gimias
Graphical Interface for Medical Image Analysis and Simulation
GIMIAS is a workflow-oriented environment for solving advanced biomedical image computing and individualized simulation problems, which is extensible through the development of problem-specific plug-ins. In addition, GIMIAS provides an open source framework for efficient development of research and clinical software prototypes integrating contributions from the Physiome community while allowing business-friendly technology transfer and commercial product development. -
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SegmentIt
Interactive Image Segmentation Tool
SegmentIt is an interactive image segmentation tool that allows to switch back and forth between the watershed approaches (watershed from markers and hierarchical watershed) so the user can explore the strengths of both. -
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as3delaunay
Delaunay triangulation and Voronoi diagram for Flash Builder 4 project
...It is based on the well-known work of Raymond Hill and offers developers an efficient way to create and manipulate geometric structures for use in Flash and other AS3-based environments. The library enables users to generate Voronoi diagrams from a set of input points, allowing applications such as procedural map generation, image segmentation, and spatial partitioning. By handling complex geometric relationships automatically, it simplifies the process of building interactive or data-driven visualizations. The project emphasizes performance and mathematical accuracy while maintaining readability for developers working in ActionScript. Its codebase serves as a reliable foundation for anyone implementing geometry-based algorithms or graphical systems within AS3 projects. -
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BioImageXD - free open source software for analysis, processing and 3D rendering of multi dimensional, multi data channel, time series image data from microscopy and other sources.
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Advanced Normalization Tools ( ANTs )
Multidimensional image registration, segmentation and statistics
*** This is an archive only, please see https://github.com/ANTsX for this and other ANTsX tools *** Image registration with variable transformations (elastic, diffeomorphic, diffeomorphisms, unbiased) and similarity metrics (landmarks, cross-correlation, mutual information, etc). Image segmentation with priors & nonparametric, multivariate models. *** Current ANTs code, binaries (Mac, Windows, Linux) and support is hosted at Github *** https://github.com/ANTsX/ANTs Docker hub: https://hub.docker.com/u/antsx Older code and binaries remain available here on SourceForge (1.9x, pre 2014). ... -
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Automatic cell lineage reconstruction
Automatic segmentation and tracking for 3D time-lapse microscopy
From Amat et al., Nature Methods, 2014*: "The comprehensive reconstruction of cell lineages in complex multicellular organisms is a central goal of developmental biology. We present an open-source computational framework for segmentation and tracking of cell nuclei with high accuracy and speed. We demonstrate its (1) generality, by reconstructing cell lineages in four-dimensional, terabyte-sized image data of fruit-fly, zebrafish and mouse embryos, acquired with three different types of fluorescence microscopes, (2) scalability, by analyzing advanced stages of development with up to 20,000 cells per time point, at 26,000 cells min-1 on a single computer workstation, and (3) ease of use, by adjusting only two parameters across all data sets and providing visualization and editing tools for efficient data curation. ... -
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MatrixUser
A Multi-functional GUI-based Program for Image Processing and Analysis
The MatrixUser project is moving to GitHub, the latest version can be obtained from https://leoliuf.github.io/MatrixUser/ Most of the medical images (e.g. CT, MRI, PET, etc.) comprises multiple frames which represent slices, phases, timing etc. from the same imaging object. Those images can be saved as multidimensional matrices in Matlab thanks to Matlab's powerful support of multidimensional data representation. However, within Matlab, most of image manipulation functions are limited or... -
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ijTools
A set of plugins and tools for ImageJ (Image processing sofware)
A collection of plugins and tools for the ImageJ software. Contains modules for image filtering (directional filtering), segmentation, analysis (perimeter estimation, geodesic diameter...), or visualisation (image overlay). -
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MITO Leap Motion Fork is a fork of the Medical Imaging TOolkit. It integrate the Leap SDK so that you can interact with the application using hand gestures.
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MDSTk is a collection of 2D/3D image processing tools aimed at medical images. It contains routines for volume data processing (3D filtering, segmentation, etc.) as well as fast low-level vector graphics library for surface and tetrahedral meshing. MDSTk has been forked by 3Dim Laboratory s.r.o. to provide better support and further push its development forward.
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Interactive Natural Image Segmenation for object cutout for image composition/background replacement. Implementation in Java, tested on version 1.5.0_17. Complete source code available.
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Pink is an image processing library developed at ESIEE Engineering for research and teaching purposes. It contains implementations of over 200 algorithms for image segmentation and filtering.
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SURF-nanodots
Very basic computer vision program
...Originated in summer 2007 as a collection of C compiled for Matlab (MEX) files and was eventually ported to a standalone C++ application with a GUI created in Qt. This program takes atomic and magnetic force microscope (AFM/MFM) image pairs as input and uses threshold segmentation to identify magnetic nanodots by intensity in the AFM image. These are then used to assess the magnetic states of those dots in the MFM image Attribution: "C++ GUI Programming with Qt 4" by Blanchette and Summerfield was helpful in getting me started on the GUI. -
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"MITO - Medical Imaging TOolkit" is an open-source, Windows-based software architecture for advanced Medical Imaging. Main characteristics are: DICOM compliant, 2D/3D/S3D visualization, image segmentation and fusion, ROI, advanced 3D user interface