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Afni
Analysis of Functional NeuroImages (AFNI) is an open-source environment for processing and displaying functional MRI data—a technique for mapping human brain activity. AFNI is an agglomeration of programs that can be used interactively or flexibly assembled for batch processing using shell script. The term ''AFNI'' refers both to the entire suite and to a particular interactive program often used for visualization. AFNI is actively developed by the NIMH Scientific and Statistical Computing Core and its capabilities are continually expanding. AFNI runs under many Unix-like operating systems that provide X11 and Motif libraries, including IRIX, Solaris, Linux, FreeBSD and OS X. Precompiled binaries are available for some platforms. AFNI is available for research use under the GNU General Public License, the included SVM-light component is non-commercial and non-distributable. AFNI now comprises over 300,000 lines of C source code, and a skilled C programmer can add inter ...
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Cross-platform
In computing, cross-platform software (also called multi-platform software, platform-agnostic software, or platform-independent software) is computer software that is designed to work in several computing platforms. Some cross-platform software requires a separate build for each platform, but some can be directly run on any platform without special preparation, being written in an interpreted language or compiled to portable bytecode for which the interpreters or run-time packages are common or standard components of all supported platforms. For example, a cross-platform application may run on Microsoft Windows, Linux, and macOS. Cross-platform software may run on many platforms, or as few as two. Some frameworks for cross-platform development are Codename One, Kivy, Qt, Flutter, NativeScript, Xamarin, Phonegap, Ionic, and React Native. Platforms ''Platform'' can refer to the type of processor (CPU) or other hardware on which an operating system (OS) or application runs, t ...
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OS X
macOS (; previously OS X and originally Mac OS X) is a Unix operating system developed and marketed by Apple Inc. since 2001. It is the primary operating system for Apple's Mac computers. Within the market of desktop and laptop computers it is the second most widely used desktop OS, after Microsoft Windows and ahead of ChromeOS. macOS succeeded the classic Mac OS, a Mac operating system with nine releases from 1984 to 1999. During this time, Apple cofounder Steve Jobs had left Apple and started another company, NeXT, developing the NeXTSTEP platform that would later be acquired by Apple to form the basis of macOS. The first desktop version, Mac OS X 10.0, was released in March 2001, with its first update, 10.1, arriving later that year. All releases from Mac OS X 10.5 Leopard and after are UNIX 03 certified, with an exception for OS X 10.7 Lion. Apple's other operating systems (iOS, iPadOS, watchOS, tvOS, audioOS) are derivatives of macOS. A promine ...
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Neuroimaging
Neuroimaging is the use of quantitative (computational) techniques to study the structure and function of the central nervous system, developed as an objective way of scientifically studying the healthy human brain in a non-invasive manner. Increasingly it is also being used for quantitative studies of brain disease and psychiatric illness. Neuroimaging is a highly multidisciplinary research field and is not a medical specialty. Neuroimaging differs from neuroradiology which is a medical specialty and uses brain imaging in a clinical setting. Neuroradiology is practiced by radiologists who are medical practitioners. Neuroradiology primarily focuses on identifying brain lesions, such as vascular disease, strokes, tumors and inflammatory disease. In contrast to neuroimaging, neuroradiology is qualitative (based on subjective impressions and extensive clinical training) but sometimes uses basic quantitative methods. Functional brain imaging techniques, such as functional magnet ...
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National Institute Of Mental Health
The National Institute of Mental Health (NIMH) is one of 27 institutes and centers that make up the National Institutes of Health (NIH). The NIH, in turn, is an agency of the United States Department of Health and Human Services and is the primary agency of the United States government responsible for biomedical and health-related research. NIMH is the largest research organization in the world specializing in mental illness. Joshua A. Gordon is the current director of NIMH. The institute was first authorized by the U.S. government in 1946, when then President Harry Truman signed into law the National Mental Health Act, although the institute was not formally established until 1949. NIMH is a $1.5 billion enterprise, supporting research on mental health through grants to investigators at institutions and organizations throughout the United States and through its own internal (intramural) research effort. The mission of NIMH is "to transform the understanding and treatment of m ...
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Voxel
In 3D computer graphics, a voxel represents a value on a regular grid in three-dimensional space. As with pixels in a 2D bitmap, voxels themselves do not typically have their position (i.e. coordinates) explicitly encoded with their values. Instead, rendering systems infer the position of a voxel based upon its position relative to other voxels (i.e., its position in the data structure that makes up a single volumetric image). In contrast to pixels and voxels, polygons are often explicitly represented by the coordinates of their vertices (as points). A direct consequence of this difference is that polygons can efficiently represent simple 3D structures with much empty or homogeneously filled space, while voxels excel at representing regularly sampled spaces that are non-homogeneously filled. Voxels are frequently used in the visualization and analysis of medical and scientific data (e.g. geographic information systems (GIS)). Some volumetric displays use voxels to describe ...
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Graphical User Interface
The GUI ( "UI" by itself is still usually pronounced . or ), graphical user interface, is a form of user interface that allows users to interact with electronic devices through graphical icons and audio indicator such as primary notation, instead of text-based UIs, typed command labels or text navigation. GUIs were introduced in reaction to the perceived steep learning curve of CLIs ( command-line interfaces), which require commands to be typed on a computer keyboard. The actions in a GUI are usually performed through direct manipulation of the graphical elements. Beyond computers, GUIs are used in many handheld mobile devices such as MP3 players, portable media players, gaming devices, smartphones and smaller household, office and industrial controls. The term ''GUI'' tends not to be applied to other lower-display resolution types of interfaces, such as video games (where HUD (''head-up display'') is preferred), or not including flat screens like volumetric displays because ...
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FMRIB Software Library
The FMRIB Software Library, abbreviated FSL, is a software library containing image analysis and statistical tools for functional, structural and diffusion MRI brain imaging data. FSL is available as both precompiled binaries and source code for Apple and PC (Linux) computers. It is freely available for non-commercial use. FSL Functionality History and development FSL is written mainly by members of the FMRIB (Functional Magnetic Resonance Imaging of the Brain) Analysis Group, Oxford University, UK. The first release of FSL was in 2000; there has been approximately one major new release each year to date. The FMRIB Analysis Group is primarily funded by the Wellcome Trust and the UK EPSRC and MRC Research Councils. See also * AFNI * FreeSurfer * SPM * Neuroimaging Neuroimaging is the use of quantitative (computational) techniques to study the structure and function of the central nervous system, developed as an objective way of scientifically studying the healthy hum ...
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Statistical Parametric Mapping
Statistical parametric mapping (SPM) is a statistical technique for examining differences in brain activity recorded during functional neuroimaging experiments. It was created by Karl Friston. It may alternatively refer to software created by the Wellcome Department of Imaging Neuroscience at University College London to carry out such analyses. Approach Unit of measurement Functional neuroimaging is one type of 'brain scanning'. It involves the measurement of brain activity. The measurement technique depends on the imaging technology (e.g., fMRI and PET). The scanner produces a 'map' of the area that is represented as voxels. Each voxel represents the activity of a specific volume in three-dimensional space. The exact size of a voxel varies depending on the technology. fMRI voxels typically represent a volume of 27 mm3 in an equilateral cuboid. Experimental design Researchers examine brain activity linked to a specific mental process or processes. One approach involves aski ...
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Medical College Of Wisconsin
The Medical College of Wisconsin (MCW) is a private medical school, pharmacy school, and graduate school of sciences headquartered in Milwaukee, Wisconsin. The school was established in 1893 and is the largest research center in eastern Wisconsin. It is associated with Froedtert Hospital as well as Children's Hospital of Wisconsin and houses the Center for Infectious Disease Research There are two additional campuses, one in Green Bay and one in Wausau. MCW is accredited by the Higher Learning Commission of the North Central Association of Colleges and Schools (HLC) and by the Liaison Committee on Medical Education (LCME). It is the only private medical school in Wisconsin, and one of only two medical schools in Wisconsin, along with the University of Wisconsin School of Medicine and Public Health in Madison. History The Medical College began to be realized with the founding of the Wisconsin College of Physicians and Surgeons in 1893 and of Milwaukee Medical College in 1894. I ...
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C (programming Language)
C (''pronounced like the letter c'') is a General-purpose language, general-purpose computer programming language. It was created in the 1970s by Dennis Ritchie, and remains very widely used and influential. By design, C's features cleanly reflect the capabilities of the targeted CPUs. It has found lasting use in operating systems, device drivers, protocol stacks, though decreasingly for application software. C is commonly used on computer architectures that range from the largest supercomputers to the smallest microcontrollers and embedded systems. A successor to the programming language B (programming language), B, C was originally developed at Bell Labs by Ritchie between 1972 and 1973 to construct utilities running on Unix. It was applied to re-implementing the kernel of the Unix operating system. During the 1980s, C gradually gained popularity. It has become one of the measuring programming language popularity, most widely used programming languages, with C compilers avail ...
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FreeBSD
FreeBSD is a free and open-source Unix-like operating system descended from the Berkeley Software Distribution (BSD), which was based on Research Unix. The first version of FreeBSD was released in 1993. In 2005, FreeBSD was the most popular open-source BSD operating system, accounting for more than three-quarters of all installed and permissively licensed BSD systems. FreeBSD has similarities with Linux, with two major differences in scope and licensing: FreeBSD maintains a complete system, i.e. the project delivers a kernel, device drivers, userland utilities, and documentation, as opposed to Linux only delivering a kernel and drivers, and relying on third-parties for system software; FreeBSD source code is generally released under a permissive BSD license, as opposed to the copyleft GPL used by Linux. The FreeBSD project includes a security team overseeing all software shipped in the base distribution. A wide range of additional third-party applications may be installe ...
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Functional Magnetic Resonance Imaging
Functional magnetic resonance imaging or functional MRI (fMRI) measures brain activity by detecting changes associated with blood flow. This technique relies on the fact that cerebral blood flow and neuronal activation are coupled. When an area of the brain is in use, blood flow to that region also increases. The primary form of fMRI uses the blood-oxygen-level dependent (BOLD) contrast, discovered by Seiji Ogawa in 1990. This is a type of specialized brain and body scan used to map neuron, neural activity in the brain or spinal cord of humans or other animals by imaging the change in blood flow (hemodynamic response) related to energy use by brain cells. Since the early 1990s, fMRI has come to dominate brain mapping research because it does not involve the use of injections, surgery, the ingestion of substances, or exposure to ionizing radiation. This measure is frequently corrupted by noise from various sources; hence, statistical procedures are used to extract the underlying si ...
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