Search Results for "matlab segmentation"
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Showing 20 open source projects for "matlab segmentation"
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MatImage
Image Processing library for Matlab
matImage is an open-source MATLAB library for image processing and analysis. It provides a variety of tools for image enhancement, segmentation, and feature extraction. It’s especially useful for users working on biomedical images or those needing detailed image analysis 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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VRN
Code for "Large Pose 3D Face Reconstruction
The VRN (Volumetric Regression Network) repository implements the “Large Pose 3D Face Reconstruction from a Single Image via Direct Volumetric CNN Regression” method. Instead of explicitly fitting a 3D model via landmark estimation and deformation, VRN treats the reconstruction task as volumetric segmentation: it learns a CNN to regress a 3D volume aligned to the input image, and then extracts a mesh via isosurface from that volume. The network is unguided (no 2D landmarks as intermediate). The mesh surfaces can be textured (in MATLAB branch) and colored. Docker container provided for easy CPU deployment. -
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DSeg software
A MATLAB program to segment filamentous bacteria and hyphae structures
...Here we present an image analysis tool DSeg to overcome the difficulties in finding complicated elongated cell shapes by using time-lapse data and cell morphological constraints. A fast binary level-set based algorithm is implemented 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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RefineNet
RefineNet: Multi-Path Refinement Networks
RefineNet is a MATLAB-based framework for semantic image segmentation and general dense prediction tasks. It implements the architecture presented in the CVPR 2017 paper RefineNet: Multi-Path Refinement Networks for High-Resolution Semantic Segmentation and its extended version published in TPAMI 2019. The framework uses multi-path refinement and improved residual pooling to achieve high-quality segmentation results across multiple benchmark datasets. ... -
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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, Fort JC, Celsis P, Alzheimer’s Disease Neuroimaging Initiative, Brain, 2009 Aug, 132(Pt 8):2036-47 A footnote giving the link to: http://sourceforge.net/projects/corthizon/ will be appreciated. -
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Deep Photo Style Transfer
Code and data for paper "Deep Photo Style Transfer"
...Compatibility with MATLAB / Octave for Laplacian computations. -
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Edges
Structured Edge Detection Toolbox
Structured Edge Detection (Edges) is a MATLAB toolbox implementing the structured forests method for fast and accurate edge detection (up to ~60 fps in many settings). The toolbox also includes the Edge Boxes object proposal method, fast superpixel generation, and utilities for training, evaluation, and integration with vision pipelines. High performance (frames per second performance depending on settings). Integration with MATLAB and compatibility with external vision pipelines. Fast edge... -
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CRFasRNN
Semantic image segmentation method described in the ICCV 2015 paper
...CRF-RNN has been developed as a custom Caffe layer named MultiStageMeanfieldLayer. Usage of this layer in the model definition prototxt file looks the following. Check the matlab-scripts or the python-scripts folder for more detailed examples. -
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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 is also available for download. ... -
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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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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. -
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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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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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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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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.
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im-browser
MIB is a high-performance software package for image segmentation
Microscopy Image Browser (MIB) is a high-performance software package for advanced image processing, segmentation and visualization of multi-dimensional (2D-4D) light and electron microscopy datasets. Home page: http://mib.helsinki.fi -
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ifscat is an Interactive Feature Selection and Classification Tool for image processing and segmentation.
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