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Huygens Software
Huygens software refers to different multiplatform microscope image processing packages from Scientific Volume Imaging, made for restoring 2D and 3D microscopy images or time series and analyzing and visualizing them. The restoration is based on different deconvolution algorithms, that permit the recovery of objects from images that are degraded by blurring and noise. In microscopy the blurring is largely due to diffraction limited imaging by the instrument; the noise is usually photon noise. The scientific visualization of 3D volume data is based on the simulated fluorescence process algorithm (SFP), but isosurfaces and maximum intensity projections are also used for object analysis and colocalization. Huygens software is named after the Dutch physicist Christiaan Huygens Christiaan Huygens, Lord of Zeelhem, ( , , ; also spelled Huyghens; la, Hugenius; 14 April 1629 – 8 July 1695) was a Dutch mathematician, physicist, engineer, astronomer, and inventor, who is regar ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Multiplatform
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 ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Noise (physics)
In electronics, noise is an unwanted disturbance in an electrical signal. Noise generated by electronic devices varies greatly as it is produced by several different effects. In particular, noise is inherent in physics, and central to thermodynamics. Any conductor with electrical resistance will generate thermal noise inherently. The final elimination of thermal noise in electronics can only be achieved cryogenically, and even then quantum noise would remain inherent. Electronic noise is a common component of noise in signal processing. In communication systems, noise is an error or undesired random disturbance of a useful information signal in a communication channel. The noise is a summation of unwanted or disturbing energy from natural and sometimes man-made sources. Noise is, however, typically distinguished from interference, for example in the signal-to-noise ratio (SNR), signal-to-interference ratio (SIR) and signal-to-noise plus interference ratio (SNIR) meas ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Colocalization
In fluorescence microscopy, colocalization refers to observation of the spatial overlap between two (or more) different fluorescent labels, each having a separate emission wavelength, to see if the different "targets" are located in the same area of the cell or very near to one another. The definition can be split into two different phenomena, co-occurrence, which refers to the presence of two (possibly unrelated) fluorophores in the same pixel, and correlation, a much more significant statistical relationship between the fluorophores indicative of a biological interaction. This technique is important to many cell biological and physiological studies during the demonstration of a relationship between pairs of bio-molecules. History The ability to demonstrate a correlation between a pair of bio-molecules was greatly enhanced by Erik Manders of the University of Amsterdam who introduced Pearson's correlation coefficient to microscopists, along with other coefficients of which the " ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Maximum Intensity Projection
In scientific visualization, a maximum intensity projection (MIP) is a method for 3D data that projects in the visualization plane the voxels with maximum intensity that fall in the way of parallel rays traced from the viewpoint to the plane of projection. This implies that two MIP renderings from opposite viewpoints are symmetrical images if they are rendered using orthographic projection. MIP is used for the detection of lung nodules in lung cancer screening programs which use computed tomography scans. MIP enhances the 3D nature of these nodules, making them stand out from pulmonary bronchi and vasculature. MIP imaging is also used routinely by physicians in interpreting Positron Emission Tomography (PET) or Magnetic Resonance Angiography studies. Additional techniques This technique is computationally fast, but the 2D results do not provide a good sense of depth of the original data. To improve the sense of 3D, animations are usually rendered of several MIP frames in whi ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Isosurface
An isosurface is a three-dimensional analog of an isoline. It is a surface that represents points of a constant value (e.g. pressure, temperature, velocity, density) within a volume of space; in other words, it is a level set of a continuous function whose domain is 3-space. The term ''isoline'' is also sometimes used for domains of more than 3 dimensions. Applications Isosurfaces are normally displayed using computer graphics, and are used as data visualization methods in computational fluid dynamics (CFD), allowing engineers to study features of a fluid flow (gas or liquid) around objects, such as aircraft wings. An isosurface may represent an individual shock wave in supersonic flight, or several isosurfaces may be generated showing a sequence of pressure values in the air flowing around a wing. Isosurfaces tend to be a popular form of visualization for volume datasets since they can be rendered by a simple polygonal model, which can be drawn on the screen very quic ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Simulated Fluorescence Process Algorithm
The Simulated Fluorescence Process (SFP) is a computing algorithm used for scientific visualization of 3D data from, for example, fluorescence microscopes. By modeling a physical light/matter interaction process, an image can be computed which shows the data as it would have appeared in reality when viewed under these conditions. Principle The algorithm considers a virtual light source producing excitation light that illuminates the object. This casts shadows either on parts of the object itself or on other objects below it. The interaction between the excitation light and the object provokes the emission light, which also interacts with the object before it finally reaches the eye of the viewer. See also * Computer graphics lighting * Rendering (computer graphics) Rendering or image synthesis is the process of generating a photorealistic or non-photorealistic image from a 2D or 3D model by means of a computer program. The resulting image is referred to as the rend ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Scientific Visualization
Scientific visualization ( also spelled scientific visualisation) is an interdisciplinary branch of science concerned with the visualization of scientific phenomena.Michael Friendly (2008)"Milestones in the history of thematic cartography, statistical graphics, and data visualization" It is also considered a subset of computer graphics, a branch of computer science. The purpose of scientific visualization is to graphically illustrate scientific data to enable scientists to understand, illustrate, and glean insight from their data. Research into how people read and misread various types of visualizations is helping to determine what types and features of visualizations are most understandable and effective in conveying information. History One of the earliest examples of three-dimensional scientific visualisation was Maxwell's thermodynamic surface, sculpted in clay in 1874 by James Clerk Maxwell. This prefigured modern scientific visualization techniques that use computer graph ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Photon Noise
Photon noise is the randomness in signal associated with photons arriving at a detector. For a simple black body emitting on an absorber, the noise-equivalent power is given by :\mathrm^2 = 2 h^2 \nu^2 \Delta\nu \left( \frac + n^2 \right) where h is the Planck constant, \nu is the central frequency, \Delta\nu is the bandwidth, n is the occupation number and \eta is the optical efficiency. The first term is essentially shot noise whereas the second term is related to the bosonic character of photons, variously known as "Bose noise" or "wave noise". At low occupation number, such as in the visible spectrum, the shot noise term dominates. At high occupation number, however, typical of the radio spectrum, the Bose term dominates. See also * Hanbury Brown and Twiss effect * Phonon noise Phonon noise, also known as thermal fluctuation noise, arises from the random exchange of energy between a thermal mass and its surrounding environment. This energy is quantized in the form of phon ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Diffraction
Diffraction is defined as the interference or bending of waves around the corners of an obstacle or through an aperture into the region of geometrical shadow of the obstacle/aperture. The diffracting object or aperture effectively becomes a secondary source of the propagating wave. Italian scientist Francesco Maria Grimaldi coined the word ''diffraction'' and was the first to record accurate observations of the phenomenon in 1660. In classical physics, the diffraction phenomenon is described by the Huygens–Fresnel principle that treats each point in a propagating wavefront as a collection of individual spherical wavelets. The characteristic bending pattern is most pronounced when a wave from a coherent source (such as a laser) encounters a slit/aperture that is comparable in size to its wavelength, as shown in the inserted image. This is due to the addition, or interference, of different points on the wavefront (or, equivalently, each wavelet) that travel by paths of d ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Microscope Image Processing
Microscope image processing is a broad term that covers the use of digital image processing techniques to process, analyze and present images obtained from a microscope. Such processing is now commonplace in a number of diverse fields such as medicine, biological research, cancer research, drug testing, metallurgy, etc. A number of manufacturers of microscopes now specifically design in features that allow the microscopes to interface to an image processing system. Image acquisition Until the early 1990s, most image acquisition in video microscopy applications was typically done with an analog video camera, often simply closed circuit TV cameras. While this required the use of a frame grabber to digitize the images, video cameras provided images at full video frame rate (25-30 frames per second) allowing live video recording and processing. While the advent of solid state detectors yielded several advantages, the real-time video camera was actually superior in many respects. Toda ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Algorithm
In mathematics and computer science, an algorithm () is a finite sequence of rigorous instructions, typically used to solve a class of specific Computational problem, problems or to perform a computation. Algorithms are used as specifications for performing calculations and data processing. More advanced algorithms can perform automated deductions (referred to as automated reasoning) and use mathematical and logical tests to divert the code execution through various routes (referred to as automated decision-making). Using human characteristics as descriptors of machines in metaphorical ways was already practiced by Alan Turing with terms such as "memory", "search" and "stimulus". In contrast, a Heuristic (computer science), heuristic is an approach to problem solving that may not be fully specified or may not guarantee correct or optimal results, especially in problem domains where there is no well-defined correct or optimal result. As an effective method, an algorithm ca ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Deconvolution
In mathematics, deconvolution is the operation inverse to convolution. Both operations are used in signal processing and image processing. For example, it may be possible to recover the original signal after a filter (convolution) by using a deconvolution method with a certain degree of accuracy. Due to the measurement error of the recorded signal or image, it can be demonstrated that the worse the SNR, the worse the reversing of a filter will be; hence, inverting a filter is not always a good solution as the error amplifies. Deconvolution offers a solution to this problem. The foundations for deconvolution and time-series analysis were largely laid by Norbert Wiener of the Massachusetts Institute of Technology in his book ''Extrapolation, Interpolation, and Smoothing of Stationary Time Series'' (1949). The book was based on work Wiener had done during World War II but that had been classified at the time. Some of the early attempts to apply these theories were in the fields of ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
