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Geometric Phase Analysis
Geometric phase analysis is a method of digital signal processing used to determine crystallographic quantities such as d-spacing or strain from high-resolution transmission electron microscope images. The analysis needs to be performed using specialized computer program. Principle In geometric phase analysis, local changes in the periodicity of a high resolution image of a crystalline material are quantified, resulting in a two-dimensional map. Quantities which can be mapped with geometric phase analysis include interplanar distances (d-spacing), two-dimensional deformation and strain tensors and displacement vectors. This allows strain fields to be determined at very high resolution, down to the unit cell of the material. Importantly, GPA performed on images that have sub unit-cell resolution can produce erroneous results. For example, a change in composition may appear as a component of the deformation tensor, with the result that an interface appears to have a strain fi ...
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Phase (waves)
In physics and mathematics, the phase of a periodic function F of some real variable t (such as time) is an angle-like quantity representing the fraction of the cycle covered up to t. It is denoted \phi(t) and expressed in such a scale that it varies by one full turn as the variable t goes through each period (and F(t) goes through each complete cycle). It may be measured in any angular unit such as degrees or radians, thus increasing by 360° or 2\pi as the variable t completes a full period. This convention is especially appropriate for a sinusoidal function, since its value at any argument t then can be expressed as \phi(t), the sine of the phase, multiplied by some factor (the amplitude of the sinusoid). (The cosine may be used instead of sine, depending on where one considers each period to start.) Usually, whole turns are ignored when expressing the phase; so that \phi(t) is also a periodic function, with the same period as F, that repeatedly scans the same range ...
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Geometric Measurement
Geometry (; ) is, with arithmetic, one of the oldest branches of mathematics. It is concerned with properties of space such as the distance, shape, size, and relative position of figures. A mathematician who works in the field of geometry is called a '' geometer''. Until the 19th century, geometry was almost exclusively devoted to Euclidean geometry, which includes the notions of point, line, plane, distance, angle, surface, and curve, as fundamental concepts. During the 19th century several discoveries enlarged dramatically the scope of geometry. One of the oldest such discoveries is Carl Friedrich Gauss' ("remarkable theorem") that asserts roughly that the Gaussian curvature of a surface is independent from any specific embedding in a Euclidean space. This implies that surfaces can be studied ''intrinsically'', that is, as stand-alone spaces, and has been expanded into the theory of manifolds and Riemannian geometry. Later in the 19th century, it appeared that geometri ...
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Electron Microscopy
An electron microscope is a microscope that uses a beam of accelerated electrons as a source of illumination. As the wavelength of an electron can be up to 100,000 times shorter than that of visible light photons, electron microscopes have a higher resolving power than light microscopes and can reveal the structure of smaller objects. A scanning transmission electron microscope has achieved better than 50  pm resolution in annular dark-field imaging mode and magnifications of up to about 10,000,000× whereas most light microscopes are limited by diffraction to about 200  nm resolution and useful magnifications below 2000×. Electron microscopes use shaped magnetic fields to form electron optical lens systems that are analogous to the glass lenses of an optical light microscope. Electron microscopes are used to investigate the ultrastructure of a wide range of biological and inorganic specimens including microorganisms, cells, large molecules, biopsy samples, ...
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Crystallography
Crystallography is the experimental science of determining the arrangement of atoms in crystalline solids. Crystallography is a fundamental subject in the fields of materials science and solid-state physics (condensed matter physics). The word "crystallography" is derived from the Greek word κρύσταλλος (''krystallos'') "clear ice, rock-crystal", with its meaning extending to all solids with some degree of transparency, and γράφειν (''graphein'') "to write". In July 2012, the United Nations recognised the importance of the science of crystallography by proclaiming that 2014 would be the International Year of Crystallography. denote a direction vector (in real space). * Coordinates in ''angle brackets'' or ''chevrons'' such as <100> denote a ''family'' of directions which are related by symmetry operations. In the cubic crystal system for example, would mean 00 10 01/nowiki> or the negative of any of those directions. * Miller indices in ''parentheses ...
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Transmission Electron Microscope
Transmission electron microscopy (TEM) is a microscopy technique in which a beam of electrons is transmitted through a specimen to form an image. The specimen is most often an ultrathin section less than 100 nm thick or a suspension on a grid. An image is formed from the interaction of the electrons with the sample as the beam is transmitted through the specimen. The image is then magnified and focused onto an imaging device, such as a fluorescent screen, a layer of photographic film, or a sensor such as a scintillator attached to a charge-coupled device. Transmission electron microscopes are capable of imaging at a significantly higher resolution than light microscopes, owing to the smaller de Broglie wavelength of electrons. This enables the instrument to capture fine detail—even as small as a single column of atoms, which is thousands of times smaller than a resolvable object seen in a light microscope. Transmission electron microscopy is a major analytical method i ...
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High-resolution Transmission Electron Microscopy
High-resolution transmission electron microscopy is an imaging mode of specialized transmission electron microscopes that allows for direct imaging of the atomic structure of samples. It is a powerful tool to study properties of materials on the atomic scale, such as semiconductors, metals, nanoparticles and sp2-bonded carbon (e.g., graphene, C nanotubes). While this term is often also used to refer to high resolution scanning transmission electron microscopy, mostly in high angle annular dark field mode, this article describes mainly the imaging of an object by recording the two-dimensional spatial wave amplitude distribution in the image plane, in analogy to a "classic" light microscope. For disambiguation, the technique is also often referred to as phase contrast transmission electron microscopy. At present, the highest point resolution realised in phase contrast transmission electron microscopy is around . At these small scales, individual atoms of a crystal and its defects ca ...
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CrysTBox
CrysTBox (''Crystallographic Tool Box'') is a software suite, suite of computer tools designed to accelerate material research based on transmission electron microscope images via highly accurate automated analysis and interactive visualization. Relying on artificial intelligence and computer vision, CrysTBox makes routine crystallographic analyses simpler, faster and more accurate compared to human evaluators. The high level of automation together with sub-pixel precision and interactive Visualization (graphics), visualization makes the Quantitative research , quantitative crystallographic analysis accessible even for non-crystallographers allowing for an interdisciplinary research. Simultaneously, experienced material science , material scientists can take advantage of advanced functionalities for comprehensive analyses. CrysTBox is being developed in the Laboratory of electron microscopy at the Institute of Physics of the Czech Academy of Sciences. For academic purposes, it is ...
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Amplitude
The amplitude of a periodic variable is a measure of its change in a single period (such as time or spatial period). The amplitude of a non-periodic signal is its magnitude compared with a reference value. There are various definitions of amplitude (see below), which are all functions of the magnitude of the differences between the variable's extreme values. In older texts, the phase of a periodic function is sometimes called the amplitude. Definitions Peak amplitude & semi-amplitude For symmetric periodic waves, like sine wave A sine wave, sinusoidal wave, or just sinusoid is a curve, mathematical curve defined in terms of the ''sine'' trigonometric function, of which it is the graph of a function, graph. It is a type of continuous wave and also a Smoothness, smooth p ...s, square waves or triangle waves ''peak amplitude'' and ''semi amplitude'' are the same. Peak amplitude In audio system measurements, telecommunications and others where the wikt:measurand, measu ...
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Digital Signal Processing
Digital signal processing (DSP) is the use of digital processing, such as by computers or more specialized digital signal processors, to perform a wide variety of signal processing operations. The digital signals processed in this manner are a sequence of numbers that represent samples of a continuous variable in a domain such as time, space, or frequency. In digital electronics, a digital signal is represented as a pulse train, which is typically generated by the switching of a transistor. Digital signal processing and analog signal processing are subfields of signal processing. DSP applications include audio and speech processing, sonar, radar and other sensor array processing, spectral density estimation, statistical signal processing, digital image processing, data compression, video coding, audio coding, image compression, signal processing for telecommunications, control systems, biomedical engineering, and seismology, among others. DSP can involve l ...
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Complex Number
In mathematics, a complex number is an element of a number system that extends the real numbers with a specific element denoted , called the imaginary unit and satisfying the equation i^= -1; every complex number can be expressed in the form a + bi, where and are real numbers. Because no real number satisfies the above equation, was called an imaginary number by René Descartes. For the complex number a+bi, is called the , and is called the . The set of complex numbers is denoted by either of the symbols \mathbb C or . Despite the historical nomenclature "imaginary", complex numbers are regarded in the mathematical sciences as just as "real" as the real numbers and are fundamental in many aspects of the scientific description of the natural world. Complex numbers allow solutions to all polynomial equations, even those that have no solutions in real numbers. More precisely, the fundamental theorem of algebra asserts that every non-constant polynomial equation with re ...
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Reciprocal Lattice
In physics, the reciprocal lattice represents the Fourier transform of another lattice (group) (usually a Bravais lattice). In normal usage, the initial lattice (whose transform is represented by the reciprocal lattice) is a periodic spatial function in real space known as the ''direct lattice''. While the direct lattice exists in real space and is commonly understood to be a physical lattice (such as the lattice of a crystal), the reciprocal lattice exists in the space of spatial frequencies known as reciprocal space or k space, where \mathbf refers to the wavevector. In quantum physics, reciprocal space is closely related to momentum space according to the proportionality \mathbf = \hbar \mathbf, where \mathbf is the momentum vector and \hbar is the Planck constant. The reciprocal lattice of a reciprocal lattice is equivalent to the original direct lattice, because the defining equations are symmetrical with respect to the vectors in real and reciprocal space. Mathematical ...
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