Search Results for "liver segmentation in matlab"
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Showing 27 open source projects for "liver segmentation in matlab"
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Spheroid_segmentation
Deep learning networks for spheroid segmentation
To accelerate the analysis of tumors' spheroids, different deep learning networks were trained to automatize the segmentation process. The code provides the trained networks based on Vgg16, Vgg19, ResNet18, and ResNet50 ready to be used for segmentation purposes. It also provides Matlab functions ready to be used to train new networks, segment new images, and measure the quality of the training using different quantitative parameters. -
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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 Windows... -
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DSeg software
A MATLAB program to segment filamentous bacteria and hyphae structures
... for extracting object contour and refining shapes. The software is implemented in MATLAB for segmenting and tracking of cell contours from various microscopy systems. Video instructions: https://www.youtube.com/embed/qMbM0shkk7A?rel Lastest updates: 20190930 DSeg: A dynamic segmentation program to extract backbone patterns for filamentous bacteria and hyphae structures,(2018). Hanqing Zhang,Niklas Soderholm, Linda Sandblad, Krister Wiklund, Magnus Andersson* -
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bwfinder
Exogenous feature extractor from brainwaves
..., a set of EDF files with brainwave recordings in the "EDF/" directory and two empty destination directories named "founds/" and "losts/". This is my first Matlab/Scilab program, apologies for the poor style but Scilab lacks and bugs prevent the writing of a pure code. Use this software freely and fight the Remote Neural Monitoring system. -
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CorThiZon
Cortical Thickness of brain by Zones
CorThiZon is a Matlab toolbox. MRI 3D T1 images are treated to estimate cortical thickness by zones in native and normalized space. It uses a Laplace-based technique following brain segmentation. Results can be easily reported in Excel files for further statistical analysis. If you use this toolbox, please reference: ‘Early diagnostic of Alzheimer’s disease using cortical thickness: impact of cognitive reserve', Querbes O, Aubry F, Pariente J, Lotterie JA, Démonet JF, Duret V, Puel M, Berry I... -
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W2MHS-DNN
Open Source White Matter Hyperintensities Segmentation Toolbox
Wisconsin White Matter Hyperintensity Segmentation [W2MHS] and Quantification Toolbox is an open source MatLab toolbox designed for detecting and quantifying White Matter Hyperintensities (WMH) in Alzheimer’s and aging related neurological disorders. WMHs arise as bright regions on T2- weighted FLAIR images. They reflect comorbid neural injury or cerebral vascular disease burden. Their precise detection is of interest in Alzheimer’s disease (AD) with regard to its prognosis. Our toolbox... -
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cocolib / light field suite
CUDA library for continuous optimization and light field analysis
Library for continuous convex optimization in image analysis, together with a command line tool and Matlab interface. Implements several recent algorithms for inverse problems and image segmentation with total variation regularizers and vectorial multilabel transition costs. Also included is a suite for variational light field analysis, which ties into the HCI light field benchmark set and givens reference implementations for a number of our recently published algorithms. *** NOTE... -
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A Generic Platform for Iris Recognition
A framework that allows iris recognition algorithms to be evaluated
This MATLAB based framework allows iris recognition algorithms from all four stages of the recognition process (segmentation, normalisation, encoding and matching) to be automatically evaluated and interchanged with other algorithms performing the same function. The algorithm for each stage can be selected from a list of available algorithms, with selection available for subfunctions as well. The selected algorithms can then be tested either manually against individual iris images... -
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The code consists of an automatic segmentation system that is based on the Hough transform, and is able to localize the circular iris and pupil region, occluding eyelids and eyelashes, and reflections. The extracted iris region was then normalized into a rectangular block with constant dimensions to account for imaging inconsistencies. Finally, the phase data from 1D Log-Gabor filters was extracted and quantized to four levels to encode the unique pattern of the iris into a bit-wise biometric...
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MATLAB code to identify specific colors of your choice in an image, using MATLAB. Visit letsrobo.wordpress.com for detailed working of the code.
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Scilab Image Processing Toolbox
Advanced image processing toolbox for Scilab on Unix/Linux/Mac OS
SIP is the image processing and computer vision package for SciLab, a free Matlab-like programming environment. SIP reads/writes images in formats like JPEG, PNG, and BMP. It does filtering, segmentation, edge detection, morphology, and shape analysis. Download from Git http://siptoolbox.sourceforge.net/devel -
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Object detection is usually a software-based monitoring algorithm that will signal, for example in the surveillance camera to begin capturing the event when it detects motion. In object tracking, the object is located and the moving object is followed. One of the fundamental steps in many computer based vision systems for object tracking and motion detection is real-time segmentation of moving regions in the image sequences. Segmentation is done in order to detect the object accurately...
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GoIFISH
for the semi-automated analysis of IFISH images
GoIFISH has been developed for the analysis of IFISH (Immunofluorescence + Fluorescence in situ Hybridisation) images, performing nuclear, membrane and spot detection. Users can manually edit segmentation results, perform background adjustments, construct heatmaps, topology maps, and perform cell classification. All results can be exported for further analysis. GoIFISH has been developed in MATLAB, however binaries are provided to run the program outside of the MATLAB environment. Source code... -
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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... -
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avimmir
(audio, video, image) Multimedia Multimodal Information Retrieval
audio classification; speaker segmentation; speaker clustering; speaker recognition; spoken document retrieval; image retrieval; video retrieval; etc. -
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WM Hyperintensities Segmentation Toolbox
Open Source White Matter Hyperintensities Segmentation Toolbox
Wisconsin White Matter Hyperintensity Segmentation [W2MHS] and Quantification Toolbox is an open source MatLab toolbox designed for detecting and quantifying White Matter Hyperintensities (WMH) in Alzheimer’s and aging related neurological disorders. WMHs arise as bright regions on T2- weighted FLAIR images. They reflect comorbid neural injury or cerebral vascular disease burden. Their precise detection is of interest in Alzheimer’s disease (AD) with regard to its prognosis. Our toolbox... -
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2P Toolbox
Two-Photon Data Analysis Toolbox
The 2P_Tools.jar is a series of hopefully useful Fiji Plugins to evaluate data acquired by two-photon imaging. It supports multiple features like conversion to normalized image stacks, preprocessing and image segmentation. -
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This is the prototype version of software for robust detecting and segmentation of cell nuclei in 3D fluorescence labeled microscopy images. First release coming soon...
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Human Machine integration for vessel segmentation has as main objective finding precise methods for the segmentation of blood vessels in retinal images, with the main goal of improving screening and diagnosis procedures.
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SURF-nanodots
Very basic computer vision program
This was my first big programming project. I'd like to clean it up and improve the back end design when time permits. See the wiki for known issues and more information. A computer vision program for analysis of magnetic data collected by a scanning probe microscope. 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... -
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An evaluation framework for assessing contours generated by segmentation algorithms acting on cardiac magnetic resonance (MR) images. These contours are important for clinical assessment of left ventricular volume and mass.
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LiverSegm has been developed with the processing of liver images in mind. This software implements a level set based variational approach that incorporates shape priors and appearance models. It uses ITK Snap as interface.
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Document recovery using Image Segmentation Using MATLAB coding .. The approach is tested both with synthetic and real data. An application to the segmentation of written documents is also presented
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EDA is Graphical User Interface and Matlab compiled application for filtration of LC-MS or GC-MS, based on probalistic methods. Including peaks and compounds segmentation with various visualizations. This software can be used for metabolomics, proteomics
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MIRtoolbox is a Matlab toolbox dedicated to the extraction of musical features from audio files, statistical analysis, segmentation and clustering. Through a user-friendly syntax, low and high-level operators can be combined into complex flowcharts.