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GIMIAS
GIMIAS is a workflow-oriented environment focused on biomedical image computing and simulation. The open-source framework is extensible through plug-ins and is focused on building research and clinical software prototypes. Gimias has been used to develop clinical prototypes in the fields of cardiac imaging and simulation, angiography imaging and simulation, and neurology GIMIAS is being funded by several national and international projects like cvREMOD, euHeart or VPH NoE. About GIMIAS GIMIAS stands for Graphical Interface for Medical Image Analysis and Simulation. GIMIAS provides a graphical user interface with all main data IO, visualization and interaction functions for images, meshes and signals. GIMIAS features include: * DICOM browser and PACS connection * Support for different imaging modalities * Biomedical data visualization in 2D and 3D: multiplanar reformation, ortho slice view, multi slice view, volume rendering, X-ray rendering, maximum intensity projection ...
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3D Slicer
3D Slicer (Slicer) is a free and open source software package for image analysis and scientific visualization. Slicer is used in a variety of medical applications, including autism, multiple sclerosis, systemic lupus erythematosus, prostate cancer, lung cancer, breast cancer, schizophrenia, orthopedic biomechanics, COPD, cardiovascular disease and neurosurgery. About 3D Slicer is a free open source software (BSD-style license) that is a flexible, modular platform for image analysis and visualization. 3D Slicer is extended to enable development of both interactive and batch processing tools for a variety of applications. 3D Slicer provides image registration, processing of DTI (diffusion tractography), an interface to external devices for image guidance support, and GPU-enabled volume rendering, among other capabilities. 3D Slicer has a modular organization that allows the addition of new functionality and provides a number of generic features not available in competing tools. ...
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Windows
Windows is a group of several proprietary graphical operating system families developed and marketed by Microsoft. Each family caters to a certain sector of the computing industry. For example, Windows NT for consumers, Windows Server for servers, and Windows IoT for embedded systems. Defunct Windows families include Windows 9x, Windows Mobile, and Windows Phone. The first version of Windows was released on November 20, 1985, as a graphical operating system shell for MS-DOS in response to the growing interest in graphical user interfaces (GUIs). Windows is the most popular desktop operating system in the world, with 75% market share , according to StatCounter. However, Windows is not the most used operating system when including both mobile and desktop OSes, due to Android's massive growth. , the most recent version of Windows is Windows 11 for consumer PCs and tablets, Windows 11 Enterprise for corporations, and Windows Server 2022 for servers. Genealogy By marketing ...
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Volume Rendering
In scientific visualization and computer graphics, volume rendering is a set of techniques used to display a 2D projection of a 3D discretely sampled data set, typically a 3D scalar field. A typical 3D data set is a group of 2D slice images acquired by a CT, MRI, or MicroCT scanner. Usually these are acquired in a regular pattern (e.g., one slice for each millimeter of depth) and usually have a regular number of image pixels in a regular pattern. This is an example of a regular volumetric grid, with each volume element, or voxel represented by a single value that is obtained by sampling the immediate area surrounding the voxel. To render a 2D projection of the 3D data set, one first needs to define a camera in space relative to the volume. Also, one needs to define the opacity and color of every voxel. This is usually defined using an RGBA (for red, green, blue, alpha) transfer function that defines the RGBA value for every possible voxel value. For example, a volume ma ...
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Myocardial
Cardiac muscle (also called heart muscle, myocardium, cardiomyocytes and cardiac myocytes) is one of three types of vertebrate muscle tissues, with the other two being skeletal muscle and smooth muscle. It is an involuntary, striated muscle that constitutes the main tissue of the wall of the heart. The cardiac muscle (myocardium) forms a thick middle layer between the outer layer of the heart wall (the pericardium) and the inner layer (the endocardium), with blood supplied via the coronary circulation. It is composed of individual cardiac muscle cells joined by intercalated discs, and encased by collagen fibers and other substances that form the extracellular matrix. Cardiac muscle contracts in a similar manner to skeletal muscle, although with some important differences. Electrical stimulation in the form of a cardiac action potential triggers the release of calcium from the cell's internal calcium store, the sarcoplasmic reticulum. The rise in calcium causes the cell's my ...
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Virtual Physiological Human
The Virtual Physiological Human (VPH) is a European initiative that focuses on a methodological and technological framework that, once established, will enable collaborative investigation of the human body as a single complex system. The collective framework will make it possible to share resources and observations formed by institutions and organizations, creating disparate but integrated computer models of the mechanical, physical and biochemical functions of a living human body. VPH is a framework which aims to be descriptive, integrative and predictive.STEP research road map
Clapworthy ''et al.'' state that the framework should be descriptive by allowing laboratory and healthcare observations around the world "to be collected, catalogued, organized, shared and combined in any possible way." It shou ...
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32-bit
In computer architecture, 32-bit computing refers to computer systems with a processor, memory, and other major system components that operate on data in 32-bit units. Compared to smaller bit widths, 32-bit computers can perform large calculations more efficiently and process more data per clock cycle. Typical 32-bit personal computers also have a 32-bit address bus, permitting up to 4 GB of RAM to be accessed; far more than previous generations of system architecture allowed. 32-bit designs have been used since the earliest days of electronic computing, in experimental systems and then in large mainframe and minicomputer systems. The first hybrid 16/32-bit microprocessor, the Motorola 68000, was introduced in the late 1970s and used in systems such as the original Apple Macintosh. Fully 32-bit microprocessors such as the Motorola 68020 and Intel 80386 were launched in the early to mid 1980s and became dominant by the early 1990s. This generation of personal computers coincided ...
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64-bit
In computer architecture, 64-bit Integer (computer science), integers, memory addresses, or other Data (computing), data units are those that are 64 bits wide. Also, 64-bit central processing unit, CPUs and arithmetic logic unit, ALUs are those that are based on processor registers, address buses, or Bus (computing), data buses of that size. A computer that uses such a processor is a 64-bit computer. From the software perspective, 64-bit computing means the use of machine code with 64-bit virtual memory addresses. However, not all 64-bit instruction sets support full 64-bit virtual memory addresses; x86-64 and ARMv8, for example, support only 48 bits of virtual address, with the remaining 16 bits of the virtual address required to be all 0's or all 1's, and several 64-bit instruction sets support fewer than 64 bits of physical memory address. The term ''64-bit'' also describes a generation of computers in which 64-bit processors are the norm. 64 bits is a Word (computer archit ...
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Microsoft Windows
Windows is a group of several proprietary graphical operating system families developed and marketed by Microsoft. Each family caters to a certain sector of the computing industry. For example, Windows NT for consumers, Windows Server for servers, and Windows IoT for embedded systems. Defunct Windows families include Windows 9x, Windows Mobile, and Windows Phone. The first version of Windows was released on November 20, 1985, as a graphical operating system shell for MS-DOS in response to the growing interest in graphical user interfaces (GUIs). Windows is the most popular desktop operating system in the world, with 75% market share , according to StatCounter. However, Windows is not the most used operating system when including both mobile and desktop OSes, due to Android's massive growth. , the most recent version of Windows is Windows 11 for consumer PCs and tablets, Windows 11 Enterprise for corporations, and Windows Server 2022 for servers. Genealogy By marketing ...
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WxWidgets
wxWidgets (formerly wxWindows) is a widget toolkit and tools library for creating graphical user interfaces (GUIs) for cross-platform applications. wxWidgets enables a program's GUI code to compile and run on several computer platforms with minimal or no code changes. A wide choice of compilers and other tools to use with wxWidgets facilitates development of sophisticated applications. wxWidgets supports a comprehensive range of popular operating systems and graphical libraries, both proprietary and free, and is widely deployed in prominent organizations (see text). The project was started under the name wxWindows in 1992 by Julian Smart at the University of Edinburgh. The project was renamed wxWidgets in 2004 in response to a trademark claim by Microsoft UK. It is free and open source software, distributed under the terms of the wxWidgets Licence, which satisfies those who wish to produce for GPL and proprietary software. Portability and deployment wxWidgets covers systems ...
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Boost C++ Libraries
Boost is a set of libraries for the C++ programming language that provides support for tasks and structures such as linear algebra, pseudorandom number generation, multithreading, image processing, regular expressions, and unit testing. It contains 164 individual libraries (as of version 1.76). All of the Boost libraries are licensed under the Boost Software License, designed to allow Boost to be used with both free and proprietary software projects. Many of Boost's founders are on the C++ standards committee, and several Boost libraries have been accepted for incorporation into the C++ Technical Report 1, the C++11 standard (e.g. smart pointers, thread, regex, random, ratio, tuple) and the C++17 standard (e.g. filesystem, any, optional, variant, string_view). The Boost community emerged around 1998, when the first version of the standard was released. It has grown continuously since then and now plays a big role in the standardization of C++. Even though there is no formal re ...
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Insight Segmentation And Registration Toolkit
__NOTOC__ ITK is a cross-platform, open-source application development framework widely used for the development of image segmentation and image registration programs. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. Typically the sampled representation is an image acquired from such medical instrumentation as CT or MRI scanners. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with an MRI scan in order to combine the information contained in both. ITK was developed with funding from the National Library of Medicine (U.S.) as an open resource of algorithms for analyzing the images of the Visible Human Project. ITK stands for The Insight Segmentation and Registration Toolkit. The toolkit provides leading-edge segmentation and registration algorithms in two, three, and more dimensions. ITK uses the CMake build environment to ma ...
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CMake
In software development, CMake is cross-platform free and open-source software for build automation, testing, packaging and installation of software by using a compiler-independent method. CMake is not a build system itself; it generates another system's build files. It supports directory hierarchies and applications that depend on multiple libraries. It is used in conjunction with native build environments such as Make, Qt Creator, Ninja, Android Studio, Apple's Xcode, and Microsoft Visual Studio. It has minimal dependencies, requiring only a C++ compiler on its own build system. CMake is distributed as open-source software under a permissive BSD-3-Clause license. History CMake development began in 1999 in response to the need for a cross-platform build environment for the Insight Segmentation and Registration Toolkit. The project is funded by the United States National Library of Medicine as part of the Visible Human Project. It was partially inspired by pcmaker, which was m ...
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