Precise on-line Measurement of Lattice Vectors

Author(s):  
W.J. de Ruijter ◽  
Sharma Renu

Established methods for measurement of lattice spacings and angles of crystalline materials include x-ray diffraction, microdiffraction and HREM imaging. Structural information from HREM images is normally obtained off-line with the traveling table microscope or by the optical diffractogram technique. We present a new method for precise measurement of lattice vectors from HREM images using an on-line computer connected to the electron microscope. It has already been established that an image of crystalline material can be represented by a finite number of sinusoids. The amplitude and the phase of these sinusoids are affected by the microscope transfer characteristics, which are strongly influenced by the settings of defocus, astigmatism and beam alignment. However, the frequency of each sinusoid is solely a function of overall magnification and periodicities present in the specimen. After proper calibration of the overall magnification, lattice vectors can be measured unambiguously from HREM images.Measurement of lattice vectors is a statistical parameter estimation problem which is similar to amplitude, phase and frequency estimation of sinusoids in 1-dimensional signals as encountered, for example, in radar, sonar and telecommunications. It is important to properly model the observations, the systematic errors and the non-systematic errors. The observations are modelled as a sum of (2-dimensional) sinusoids. In the present study the components of the frequency vector of the sinusoids are the only parameters of interest. Non-systematic errors in recorded electron images are described as white Gaussian noise. The most important systematic error is geometric distortion. Lattice vectors are measured using a two step procedure. First a coarse search is obtained using a Fast Fourier Transform on an image section of interest. Prior to Fourier transformation the image section is multiplied with a window, which gradually falls off to zero at the edges. The user indicates interactively the periodicities of interest by selecting spots in the digital diffractogram. A fine search for each selected frequency is implemented using a bilinear interpolation, which is dependent on the window function. It is possible to refine the estimation even further using a non-linear least squares estimation. The first two steps provide the proper starting values for the numerical minimization (e.g. Gauss-Newton). This third step increases the precision with 30% to the highest theoretically attainable (Cramer and Rao Lower Bound). In the present studies we use a Gatan 622 TV camera attached to the JEM 4000EX electron microscope. Image analysis is implemented on a Micro VAX II computer equipped with a powerful array processor and real time image processing hardware. The typical precision, as defined by the standard deviation of the distribution of measurement errors, is found to be <0.003Å measured on single crystal silicon and <0.02Å measured on small (10-30Å) specimen areas. These values are ×10 times larger than predicted by theory. Furthermore, the measured precision is observed to be independent on signal-to-noise ratio (determined by the number of averaged TV frames). Obviously, the precision is restricted by geometric distortion mainly caused by the TV camera. For this reason, we are replacing the Gatan 622 TV camera with a modern high-grade CCD-based camera system. Such a system not only has negligible geometric distortion, but also high dynamic range (>10,000) and high resolution (1024x1024 pixels). The geometric distortion of the projector lenses can be measured, and corrected through re-sampling of the digitized image.

1997 ◽  
Vol 3 (S2) ◽  
pp. 1113-1114
Author(s):  
M. Pan ◽  
N.H. Olsont ◽  
T.S. Bakert

Recording electron microscope images of frozen-hydrated samples under cryo-conditions is a difficult and challenging task. The inherently low sample contrast makes accurate focusing difficult. Furthermore most frozen-hydrated samples are very beam sensitive so that electron dose on the sample must be kept to the minimum. In recent years, the new generation of cooled slow-scan CCD (SSC) cameras have shown superior properties in sensitivity, resolution, dynamic range, linearity, and more importantly their ability to display images on-line. Computer control of electron microscopes via the standard RS232C serial interface has been greatly facilitated by the use of on-line CCD images. We have developed a software package that allows cryo-electron microscope images to be automatically acquired onto a CCD camera via computer control of the microscope. This fully automated feature allows quality cryo-electron microscope images to be recorded with increased efficiency and enhances the possibility of obtaining three-dimensional reconstructions from images.


Author(s):  
D. Van Dyck

An (electron) microscope can be considered as a communication channel that transfers structural information between an object and an observer. In electron microscopy this information is carried by electrons. According to the theory of Shannon the maximal information rate (or capacity) of a communication channel is given by C = B log2 (1 + S/N) bits/sec., where B is the band width, and S and N the average signal power, respectively noise power at the output. We will now apply to study the information transfer in an electron microscope. For simplicity we will assume the object and the image to be onedimensional (the results can straightforwardly be generalized). An imaging device can be characterized by its transfer function, which describes the magnitude with which a spatial frequency g is transferred through the device, n is the noise. Usually, the resolution of the instrument ᑭ is defined from the cut-off 1/ᑭ beyond which no spadal information is transferred.


Author(s):  
F. Ouyang ◽  
D. A. Ray ◽  
O. L. Krivanek

Electron backscattering Kikuchi diffraction patterns (BKDP) reveal useful information about the structure and orientation of crystals under study. With the well focused electron beam in a scanning electron microscope (SEM), one can use BKDP as a microanalysis tool. BKDPs have been recorded in SEMs using a phosphor screen coupled to an intensified TV camera through a lens system, and by photographic negatives. With the development of fiber-optically coupled slow scan CCD (SSC) cameras for electron beam imaging, one can take advantage of their high sensitivity and wide dynamic range for observing BKDP in SEM.We have used the Gatan 690 SSC camera to observe backscattering patterns in a JEOL JSM-840A SEM. The CCD sensor has an active area of 13.25 mm × 8.83 mm and 576 × 384 pixels. The camera head, which consists of a single crystal YAG scintillator fiber optically coupled to the CCD chip, is located inside the SEM specimen chamber. The whole camera head is cooled to about -30°C by a Peltier cooler, which permits long integration times (up to 100 seconds).


Author(s):  
John F. Mansfield ◽  
Douglas C. Crawford

A method has been developed that allows on-line measurement of the thickness of crystalline materials in the analytical electron microscope. Two-beam convergent beam electron diffraction (CBED) patterns are digitized from a JEOL 2000FX electron microscope into an Apple Macintosh II microcomputer via a Gatan #673 CCD Video Camera and an Imaging Systems Technology Video 1000 frame-capture board. It is necessary to know the lattice parameters of the sample since measurements are made of the spacing of the diffraction discs in order to calibrate the pattern. The sample thickness is calculated from measurements of the spacings of the fringes that are seen in the diffraction discs. This technique was pioneered by Kelly et al, who used the two-beam dynamic theory of MacGillavry relate the deviation parameter (Si) of the ith fringe from the exact Bragg condition to the specimen thickness (t) with the equation:Where ξg, is the extinction distance for that reflection and ni is an integer.


Author(s):  
M.A. O’Keefe ◽  
J. Taylor ◽  
D. Owen ◽  
B. Crowley ◽  
K.H. Westmacott ◽  
...  

Remote on-line electron microscopy is rapidly becoming more available as improvements continue to be developed in the software and hardware of interfaces and networks. Scanning electron microscopes have been driven remotely across both wide and local area networks. Initial implementations with transmission electron microscopes have targeted unique facilities like an advanced analytical electron microscope, a biological 3-D IVEM and a HVEM capable of in situ materials science applications. As implementations of on-line transmission electron microscopy become more widespread, it is essential that suitable standards be developed and followed. Two such standards have been proposed for a high-level protocol language for on-line access, and we have proposed a rational graphical user interface. The user interface we present here is based on experience gained with a full-function materials science application providing users of the National Center for Electron Microscopy with remote on-line access to a 1.5MeV Kratos EM-1500 in situ high-voltage transmission electron microscope via existing wide area networks. We have developed and implemented, and are continuing to refine, a set of tools, protocols, and interfaces to run the Kratos EM-1500 on-line for collaborative research. Computer tools for capturing and manipulating real-time video signals are integrated into a standardized user interface that may be used for remote access to any transmission electron microscope equipped with a suitable control computer.


Author(s):  
D. Shindo

Imaging plate has good properties, i.e., a wide dynamic range and good linearity for the electron intensity. Thus the digital data (2048x1536 pixels, 4096 gray levels in log scale) obtained with the imaging plate can be used for quantification in electron microscopy. By using the image processing system (PIXsysTEM) combined with a main frame (ACOS3900), quantitative analysis of electron diffraction patterns and high-resolution electron microscope (HREM) images has been successfully carried out.In the analysis of HREM images observed with the imaging plate, quantitative comparison between observed intensity and calculated intensity can be carried out by taking into account the experimental parameters such as crystal thickness and defocus value. An example of HREM images of quenched Tl2Ba2Cu1Oy (Tc = 70K) observed with the imaging plate is shown in Figs. 1(b) - (d) comparing with a structure model proposed by x-ray diffraction study of Fig. 1 (a). The image was observed with a JEM-4000EX electron microscope (Cs =1.0 mm).


1993 ◽  
Vol 27 (3-4) ◽  
pp. 1-13 ◽  
Author(s):  
Arie H. Havelaar ◽  
Siem H. Heisterkamp ◽  
Janneke A. Hoekstra ◽  
Kirsten A. Mooijman

The general concept of measurement errors is applied to quantitative bacteriological counts on membrane filters or agar plates. The systematic errors of these methods are related to the growth characteristics of the medium (recovery of target organisms and inhibition of non-target organisms) and to its differential characteristics (sensitivity and specificity). Factors that influence the precision of microbiological counts are the variation between replicates, within samples, between operators and between laboratories. It is also affected by the linearity of the method, the verification rate and, where applicable, the number of colonies subcultured for verification. Repeatability (r) and reproducibility (R) values can be calculated on the logarithmic scale.


1998 ◽  
Vol 38 (2) ◽  
pp. 9-15 ◽  
Author(s):  
J. Guan ◽  
T. D. Waite ◽  
R. Amal ◽  
H. Bustamante ◽  
R. Wukasch

A rapid method of determining the structure of aggregated particles using small angle laser light scattering is applied here to assemblages of bacteria from wastewater treatment systems. The structure information so obtained is suggestive of fractal behaviour as found by other methods. Strong dependencies are shown to exist between the fractal structure of the bacterial aggregates and the behaviour of the biosolids in zone settling and dewatering by both pressure filtration and centrifugation methods. More rapid settling and significantly higher solids contents are achievable for “looser” flocs characterised by lower fractal dimensions. The rapidity of determination of structural information and the strong dependencies of the effectiveness of a number of wastewater treatment processes on aggregate structure suggests that this method may be particularly useful as an on-line control tool.


2016 ◽  
Vol 23 (1) ◽  
pp. 214-218 ◽  
Author(s):  
G. Bortel ◽  
G. Faigel ◽  
M. Tegze ◽  
A. Chumakov

Kossel line patterns contain information on the crystalline structure, such as the magnitude and the phase of Bragg reflections. For technical reasons, most of these patterns are obtained using electron beam excitation, which leads to surface sensitivity that limits the spatial extent of the structural information. To obtain the atomic structure in bulk volumes, X-rays should be used as the excitation radiation. However, there are technical problems, such as the need for high resolution, low noise, large dynamic range, photon counting, two-dimensional pixel detectors and the small spot size of the exciting beam, which have prevented the widespread use of Kossel pattern analysis. Here, an experimental setup is described, which can be used for the measurement of Kossel patterns in a reasonable time and with high resolution to recover structural information.


2018 ◽  
Vol 618 ◽  
pp. A39 ◽  
Author(s):  
M. Roncarelli ◽  
M. Gaspari ◽  
S. Ettori ◽  
V. Biffi ◽  
F. Brighenti ◽  
...  

Context. The X-ray Integral Field Unit (X-IFU) that will be on board the Athena telescope will provide an unprecedented view of the intracluster medium (ICM) kinematics through the observation of gas velocity, ν, and velocity dispersion, w, via centroid-shift and broadening of emission lines, respectively. Aims. The improvement of data quality and quantity requires an assessment of the systematics associated with this new data analysis, namely biases, statistical and systematic errors, and possible correlations between the different measured quantities. Methods. We have developed an end-to-end X-IFU simulator that mimics a full X-ray spectral fitting analysis on a set of mock event lists, obtained using SIXTE. We have applied it to three hydrodynamical simulations of a Coma-like cluster that include the injection of turbulence. This allowed us to assess the ability of X-IFU to map five physical quantities in the cluster core: emission measure, temperature, metal abundance, velocity, and velocity dispersion. Finally, starting from our measurements maps, we computed the 2D structure function (SF) of emission measure fluctuations, ν and w, and compared them with those derived directly from the simulations. Results. All quantities match with the input projected values without bias; the systematic errors were below 5%, except for velocity dispersion whose error reaches about 15%. Moreover, all measurements prove to be statistically independent, indicating the robustness of the fitting method. Most importantly, we recover the slope of the SFs in the inertial regime with excellent accuracy, but we observe a systematic excess in the normalization of both SFν and SFw ascribed to the simplistic assumption of uniform and (bi-)Gaussian measurement errors. Conclusions. Our work highlights the excellent capabilities of Athena X-IFU in probing the thermodynamic and kinematic properties of the ICM. This will allow us to access the physics of its turbulent motions with unprecedented precision.


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