Search Results for "flash image software"
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Showing 28 open source projects for "flash image software"
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ReViMS
ReViMS, a 3D volume rendering tool for light-sheet/confocal microscopy
...ReViMS is written in MATLAB (The MathWorks, Inc., Massachusetts, USA). It is an open-source tool and the source code is freely available at: http://sourceforge.net/p/revims Requirements: MATLAB R2017b and Image Processing Toolbox 10.1 or later versions. -
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BioXTAS RAW
Processing and analysis of Small Angle X-ray Scattering (SAXS) data.
BioXTAS RAW is a program for analysis of Small-Angle X-ray Scattering (SAXS) data. The software enables: creation of 1D scattering profiles from 2D detector images, standard data operations such as averaging and subtraction, analysis of radius of gyration (Rg) and molecular weight, and advanced analysis using GNOM and DAMMIF as well as electron density reconstructions using DENSS. It also allows easy processing of inline SEC-SAXS data and data deconvolution using the evolving factor analysis... -
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NOVA
Analysis and visualization of complexome profiling data.
...Several hierarchical clustering algorithms (e.g., single linkage, average linkage, Wards linkage), different distance measures (e.g., Euclidean distance, Manhattan distance, Pearson distance), and various normalization techniques are implemented. Many additional functions like zooming, searching for proteins, image export, and automatic file format recognition support intuitive handling for biologists. Giese, et al. NOVA: a software to analyze complexome profiling data. Bioinformatics, 2015, 31(3): 440-441 -
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Root Phenotyping Suite
Three different software tools for phenotyping plant root images
RootAnalyzer is a fully automated tool, for efficiently extracting and analyzing anatomical traits from root-cross section images. RootAnalyzer segments the plant root from the image's background, classifies and characterizes the cortex, stele, endodermis and metaxylem, and produces statistics about the morphological properties of the root cells and tissues. RTipC is a system for the fully automated detection and classification of root tips in root images obtained either by 2d flat bed... -
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CognitionMaster
object-based image analysis framework
Wienert S, Heim D, Kotani M, Lindequist B, Stenzinger A, Ishii M, Hufnagl P, Beil M, Dietel M, Denkert C, Klauschen F. CognitionMaster: an object-based image analysis framework. Diagn Pathol 2013, 8:34 -
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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. -
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F-Tracker3D
A software tool for tracking fluorescent cells in 3D
...F-Tracker3D is written in MATLAB (©, The MathWorks, Inc., Massachusetts, USA) and the source code is freely provided. Requirements: MATLAB 2015a and Image Processing Toolbox 9.2 or later versions. -
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MDA
Molecular Dynamics Analyzer (MDA)
MDA is a 3D single-particle tracking software that explicitly addresses fluorescence microscopy experiments deep in living specimens. It is capable of minimizing the systematic error that occurs with astigmatism-based 3D techniques owing to the aberrations induced by the refractive index mismatch. In contrast to existing techniques, the method determines the aberration directly from the acquired 2D image stream by exploiting the inherent particle movement and the redundancy introduced by the astigmatism. ... -
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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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SPADE
A toolkit for developing and deploying protein structure algorithms.
The Structural Proteomics Application Development Environment is a Python tool kit for developing and deploying bioinformatics applications. Handles graphics, analysis, and modeling of protein sequence and structure. Source and Win installers available. SPADE source code can be cloned from http://www.github.com/deaconjs/SPADE. -
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CaspLab - Comet Assay Software Project Lab is a cross-platform image analysis software to measure level of DNA damage in SCGE (Single Cell Gel Electrophoresis) method called also comet assay method.
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birgHPCC
Rapid CUDA Cluster Deployment
...While retaining the major functions of the original birgHPC, including automated computing cluster conversion and auto slots detection, the new version (birgHPCC) is capable of creating and configuring a compute unified device architecture (CUDA) computing cluster, hence the extra “C” in the name. In addition to the increase in image size (less than 2 gigabytes) and a new Linux base (previously Debian, now Ubuntu), CUDA-capable bioinformatics software programs, such as NAMD, HOOMD-blue, VMD, GPU-HMMER and GPU-BLAST, are pre-installed in birgHPCC, along with the CUDA driver, libraries and software development kit (SDK). In short, birgHPCC is the world's first CUDA-ready, bioinformatics-based, live DVD. -
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If you manage phylogenetic data, Bio::NEXUS can make your life easier with a library and ready-made tools to manipulate and visualize NEXUS files (see http://www.molevol.org/nexplorer and http://search.cpan.org/dist/Bio-NEXUS/doc/Tutorial.pod).
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SVGMap
Open source web tool to help you in the data visualisation
SVGMap is an open source web tool to help you in the visualisation of experimental data associated to some graphical representation. More at : 1. Project website http://bg.upf.edu/svgmap 2. Reference : Xavier Rafael-Palou, Michael P. Schroeder, and Nuria Lopez-Bigas SVGMap: configurable image browser for experimental data Bioinformatics 2011 : btr581v1-btr581. -
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TMAJ is software for Tissue MicroArrays (TMA's). Patients, specimens, blocks, slides, cores, images, and scores can all be stored and viewed. Features include advanced security, custom dynamic fields, and an image analysis program.
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...As mentioned before this software also capable do some image processing on scanned paper to lower the final costs.
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A software tool enabling the user to browse through an image stack created by a confocal microscope. Points can be plotted through the stack, producing a digital 3D representation, which can be viewed in 3D and compared with other plots.
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Spotfinder is an image processing software tool for microarray image analisys. It is written on C++ with QT GUI toolkit and runs on Windows, X11, and Mac OSX.
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The Shrimp suite provides interactive visualizations of graph-based data. Creole (Eclipse plug-in) visualizes Java source code. Jambalaya (Protege plug-in) visualizes ontologies (including OWL), & Stand-Alone Shrimp visualizes RSF/GXL/PRJ/PPRJ files.
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Auto PHLIP-ML automatically removes extraneous images from CLSM stacks. This iterative operation removes bias in the Otsu threshold calcualtion. Auto PHLIP-ML integrates with the image analysis program PHLIP by automatically creating the PHLIP-ML file.
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A set of very useful utilities from icon extraction tool for everyday use to free encryption tools and sound analysis software aimed at any healthcare professional interested in improving his/her cardiac auscultation skills.
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Frida is image analysis software. Frida was developed by the Johns Hopkins University Tissue Microarray Core Facility. It is open source and written in 100% Java. Frida makes use of functionality from the NIH's ImageJ application. Note: Frida was integr
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SIMRI: a versatile and interactive Magnetic Resonance Imaging (MRI) simulator. Such a simulator is a command line software written in C that reproduces the physical phenomenas encountered during an MRI acquisition to produce a realistic MRI image.
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This software system serves as both a DICOM image viewer as well as a diagramming tool for collaborating notes on the given image sets. This my Computer Science graduate thesis project at Loyola Marymount University.
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OpenMedic is a set of open source software and hardware building blocks written in C# for building computer-based medical instrumentation and controls using the .NET framework.
