Phase Retrieval
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Phase Retrieval
Phase retrieval is the process of algorithmically finding solutions to the phase problem. Given a complex signal F(k), of amplitude , F (k), , and phase \psi(k): ::F(k) = , F(k), e^ =\int_^ f(x)\ e^\,dx where ''x'' is an ''M''-dimensional spatial coordinate and ''k'' is an ''M''-dimensional spatial frequency coordinate. Phase retrieval consists of finding the phase that satisfies a set of constraints for a measured amplitude. Important applications of phase retrieval include X-ray crystallography, transmission electron microscopy and coherent diffractive imaging, for which M = 2. Uniqueness theorems for both 1-D and 2-D cases of the phase retrieval problem, including the phaseless 1-D inverse scattering problem, were proven by Klibanov and his collaborators (see References). Problem formulation Here we consider 1-D discrete Fourier transform (DFT) phase retrieval problem. The DFT of a complex signal f /math> is given by F \sum_^ f e^=, F \cdot e^ \quad k=0,1, \ldots, N-1, ...
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Transport-of-Intensity Equation
The transport-of-intensity equation (TIE) is a computational approach to reconstruct the phase of a complex wave in optical and electron microscopy. It describes the internal relationship between the intensity and phase distribution of a wave. The TIE was first proposed in 1983 by Michael Reed Teague. Teague suggested to use the law of conservation of energy to write a differential equation for the transport of energy by an optical field. This equation, he stated, could be used as an approach to phase recovery. Teague approximated the amplitude of the wave propagating nominally in the z-direction by a parabolic equation and then expressed it in terms of irradiance and phase: :\frac \fracI(x,y,z)= -\nabla_ \cdot (x,y,z)\nabla_\Phi where \lambda is the wavelength, I(x,y,z) is the irradiance at point (x,y,z), and \Phi is the phase of the wave. If the intensity distribution of the wave and its spatial derivative In mathematics, the derivative of a function of a real v ...
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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 ...
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Gaussian Function
In mathematics, a Gaussian function, often simply referred to as a Gaussian, is a function of the base form f(x) = \exp (-x^2) and with parametric extension f(x) = a \exp\left( -\frac \right) for arbitrary real constants , and non-zero . It is named after the mathematician Carl Friedrich Gauss. The graph of a Gaussian is a characteristic symmetric " bell curve" shape. The parameter is the height of the curve's peak, is the position of the center of the peak, and (the standard deviation, sometimes called the Gaussian RMS width) controls the width of the "bell". Gaussian functions are often used to represent the probability density function of a normally distributed random variable with expected value and variance . In this case, the Gaussian is of the form g(x) = \frac \exp\left( -\frac \frac \right). Gaussian functions are widely used in statistics to describe the normal distributions, in signal processing to define Gaussian filters, in image processing where two-dimensio ...
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Mathematical Physics
Mathematical physics refers to the development of mathematics, mathematical methods for application to problems in physics. The ''Journal of Mathematical Physics'' defines the field as "the application of mathematics to problems in physics and the development of mathematical methods suitable for such applications and for the formulation of physical theories". An alternative definition would also include those mathematics that are inspired by physics (also known as physical mathematics). Scope There are several distinct branches of mathematical physics, and these roughly correspond to particular historical periods. Classical mechanics The rigorous, abstract and advanced reformulation of Newtonian mechanics adopting the Lagrangian mechanics and the Hamiltonian mechanics even in the presence of constraints. Both formulations are embodied in analytical mechanics and lead to understanding the deep interplay of the notions of symmetry (physics), symmetry and conservation law, con ...
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Phase Correlation
Phase correlation is an approach to estimate the relative translative offset between two similar images (digital image correlation) or other data sets. It is commonly used in image registration and relies on a frequency-domain representation of the data, usually calculated by fast Fourier transforms. The term is applied particularly to a subset of cross-correlation techniques that isolate the phase information from the Fourier-space representation of the cross-correlogram. Example The following image demonstrates the usage of phase correlation to determine relative translative movement between two images corrupted by independent Gaussian noise. The image was translated by (30,33) pixels. Accordingly, one can clearly see a peak in the phase-correlation representation at approximately (30,33). Method Given two input images \ g_a and \ g_b: Apply a window function (e.g., a Hamming window) on both images to reduce edge effects (this may be optional depending on the image charact ...
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Coherent Diffraction Imaging
Coherent diffractive imaging (CDI) is a "lensless" technique for 2D or 3D reconstruction of the image of nanoscale structures such as nanotubes, nanocrystals, porous nanocrystalline layers, defects, potentially proteins, and more. In CDI, a highly coherent beam of X-rays, electrons or other wavelike particle or photon is incident on an object. The beam scattered by the object produces a diffraction pattern downstream which is then collected by a detector. This recorded pattern is then used to reconstruct an image via an iterative feedback algorithm. Effectively, the objective lens in a typical microscope is replaced with software to convert from the reciprocal space diffraction pattern into a real space image. The advantage in using no lenses is that the final image is aberration–free and so resolution is only diffraction and dose limited (dependent on wavelength, aperture size and exposure). Applying a simple inverse Fourier transform to information with only intensities is i ...
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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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Phase Problem
In physics, the phase problem is the problem of loss of information concerning the phase that can occur when making a physical measurement. The name comes from the field of X-ray crystallography, where the phase problem has to be solved for the determination of a structure from diffraction data. The phase problem is also met in the fields of imaging and signal processing. Various approaches of phase retrieval have been developed over the years. Overview Light detectors, such as photographic plates or CCDs, measure only the intensity of the light that hits them. This measurement is incomplete (even when neglecting other degrees of freedom such as polarization and angle of incidence) because a light wave has not only an amplitude (related to the intensity), but also a phase (related to the direction), and polarization which are systematically lost in a measurement. In diffraction or microscopy experiments, the phase part of the wave often contains valuable information on the stud ...
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Hubble Space Telescope
The Hubble Space Telescope (often referred to as HST or Hubble) is a space telescope that was launched into low Earth orbit in 1990 and remains in operation. It was not the first space telescope, but it is one of the largest and most versatile, renowned both as a vital research tool and as a public relations boon for astronomy. The Hubble telescope is named after astronomer Edwin Hubble and is one of NASA's Great Observatories. The Space Telescope Science Institute (STScI) selects Hubble's targets and processes the resulting data, while the Goddard Space Flight Center (GSFC) controls the spacecraft. Hubble features a mirror, and its five main instruments observe in the ultraviolet, visible, and near-infrared regions of the electromagnetic spectrum. Hubble's orbit outside the distortion of Earth's atmosphere allows it to capture extremely high-resolution images with substantially lower background light than ground-based telescopes. It has recorded some of the most detaile ...
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Lens
A lens is a transmissive optical device which focuses or disperses a light beam by means of refraction. A simple lens consists of a single piece of transparent material, while a compound lens consists of several simple lenses (''elements''), usually arranged along a common axis. Lenses are made from materials such as glass or plastic, and are ground and polished or molded to a desired shape. A lens can focus light to form an image, unlike a prism, which refracts light without focusing. Devices that similarly focus or disperse waves and radiation other than visible light are also called lenses, such as microwave lenses, electron lenses, acoustic lenses, or explosive lenses. Lenses are used in various imaging devices like telescopes, binoculars and cameras. They are also used as visual aids in glasses to correct defects of vision such as myopia and hypermetropia. History The word ''lens'' comes from '' lēns'', the Latin name of the lentil (a seed of a lentil plant), b ...
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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 ...
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Coherent Diffraction Imaging
Coherent diffractive imaging (CDI) is a "lensless" technique for 2D or 3D reconstruction of the image of nanoscale structures such as nanotubes, nanocrystals, porous nanocrystalline layers, defects, potentially proteins, and more. In CDI, a highly coherent beam of X-rays, electrons or other wavelike particle or photon is incident on an object. The beam scattered by the object produces a diffraction pattern downstream which is then collected by a detector. This recorded pattern is then used to reconstruct an image via an iterative feedback algorithm. Effectively, the objective lens in a typical microscope is replaced with software to convert from the reciprocal space diffraction pattern into a real space image. The advantage in using no lenses is that the final image is aberration–free and so resolution is only diffraction and dose limited (dependent on wavelength, aperture size and exposure). Applying a simple inverse Fourier transform to information with only intensities is i ...
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