scholarly journals Assessment of Local Observation of Atomic Ordering in Alloys via the Radial Distribution Function: A Computational and Experimental Approach

2021 ◽  
Vol 8 ◽  
Author(s):  
Alexander D. Greenhalgh ◽  
Liurukara D. Sanjeewa ◽  
Piotr Luszczek ◽  
Vasileios Maroulas ◽  
Orlando Rios ◽  
...  

As a powerful analytical technique, atom probe tomography (APT) has the capacity to acquire the spatial distribution of millions of atoms from a complex sample. However, extracting information at the Ångstrom-scale on atomic ordering remains a challenge due to the limits of the APT experiment and data analysis algorithms. The development of new computational tools enable visualization of the data and aid understanding of the physical phenomena such as disorder of complex crystalline structures. Here, we report progress towards this goal using two steps. We describe a computational approach to evaluate atomic ordering in the crystal structure by generating radial distribution functions (RDF). Atomic ordering is rendered as the Fractional Cumulative Radial Distribution Function (FCRDF) which allows for greater visibility of local compositions at short range in the structure. Further, we accommodate in the analysis additional parameters such as uncertainty in the atomic coordinates and the atomic abundance to ascertain short-range ordering in APT data sets. We applied the FCRDF analysis to synthetic and experimental APT data sets for Ni3Al. The ability to observe a signal of atomic ordering consistent with the known L12 crystal structure is heavily dependent on spatial uncertainty, irrespective of abundance. Detection of atomic ordering is subject to an upper limit of spatial uncertainty of atoms described with Gaussian distributions with a standard deviation of 1.3 Å. The FCRDF analysis was also applied to the APT data set for a six-component alloy, Al1.3CoCrCuFeNi. In this case, we are currently able to visualize elemental segregation at the nanoscale, though unambiguous identification of atomic ordering at the Ångstrom (nearest-neighbor) scale remains a goal.

1990 ◽  
Vol 208 ◽  
Author(s):  
Q. Dai ◽  
A. J. Gellman

ABSTRACTEXtended Electron Energy Loss Fine Structure (EXELFS) spectra have been obtained above the K-edge of nitrogen atoms adsorbed on Cu. The radial distribution functions obtained from the fine structure indicate N-Cu bond lengths of 1.84(±.03) Å and 1.81(±.03) Å for nitrogen on the Cu(100) and Cu(110) surfaces respectively. As in previous EXELFS measurements, the actual measurements made are of N"(E) rather than direct measurement of N(E), the electron energy loss distribution. The EXELFS spectra from these two surfaces are used to illustrate the influence of this collection scheme on the radial distribution function obtained by Fourier transformation of the raw data. To obtain the direct analog of the radial distribution function found from the EXAFS experiment one must either resort to spectral integration or appropriate scaling of the distribution function found in the EXELFS experiment.


1986 ◽  
Vol 19 (3) ◽  
pp. 198-199
Author(s):  
F. Hajdu ◽  
G. Herms

The interpretation of a relationship between measured intensities and the radial distribution function given in the paper `The accuracy of experimental radial distribution functions for metallic glasses' [Thijsse (1984). J. Appl. Cryst. 17, 61–76] is disputed.


The present paper is concerned with a new approximation for the distribution function of third order. This approximation may be regarded as an improved form of the well-known superposition assumption of Kirkwood. The idea is to add to Kirkwood’s expression a linear combination of distribution functions of the same type, the coefficients of which can be easily determined. The new approximation is introduced in the Bom—Green integral equation for the radial distribution function, for which an expansion into powers of the density is used. From this the terms proportional to the first and second power of the density are calculated. The first four virial coefficients can be expressed as functions of these terms, whether the pressure equation or the compressibility equation is used. Numerical evaluation is performed for the ideal case of a gas of rigid spheres. The value obtained for the fourth virial coefficient is compared with the exact one and those given by naing Kirkwood’s assumption by Rushbrooke & Scoins, and Nijboer & van Hove. It is seen to be more nearly exact and internally consistent. The term proportional to the square of the density, in the expansion of the radial distribution function, appears to be very similar to the exact one as calculated by Nijboer & van Hove. It can be seen to be better than the corresponding term when Kirkwood’s assumption or one proposed by Nijboer & van Hove is used. Finally, an alternative assumption is suggested, and applied to the case of hard spheres.


Author(s):  
Jurica Novak ◽  
Maria A. Grishina ◽  
Vladimir A. Potemkin

: In this letter the newly introduced approach based on the radial distribution function (RDF) weighted by the number of va-lence shell electrons is applied for a series of HIV-1 protease enzyme and its complexes with inhibitors to evaluate the influ-ence of hydrogen atoms on the performance of the model. The multiple linear regression method was used for the selection of the relevant descriptors. Two groups of residues having dominant contribution to the RDF descriptor are identified as relevant for the inhibition. In the first group are residues like Arg8, Asp25, Thr26, Gly27 and Asp29, which establish direct interaction with the inhibitor, while the second group consists of the amino acids at the interface of the two homodimer sub-units or with the solvent. The crucial motif pointed out by our approach as the most important for inhibition of the enzyme’s activity and present in all inhibitors is hydroxyl group that establish hydrogen bond with Asp25 side chain. Additionally, the comparison to the model without hydrogen showed that both models are of similar quality, but the downside of the current model is the need for the determination of residues’ protonation states.


2020 ◽  
Vol 501 (1) ◽  
pp. 994-1001
Author(s):  
Suman Sarkar ◽  
Biswajit Pandey ◽  
Snehasish Bhattacharjee

ABSTRACT We use an information theoretic framework to analyse data from the Galaxy Zoo 2 project and study if there are any statistically significant correlations between the presence of bars in spiral galaxies and their environment. We measure the mutual information between the barredness of galaxies and their environments in a volume limited sample (Mr ≤ −21) and compare it with the same in data sets where (i) the bar/unbar classifications are randomized and (ii) the spatial distribution of galaxies are shuffled on different length scales. We assess the statistical significance of the differences in the mutual information using a t-test and find that both randomization of morphological classifications and shuffling of spatial distribution do not alter the mutual information in a statistically significant way. The non-zero mutual information between the barredness and environment arises due to the finite and discrete nature of the data set that can be entirely explained by mock Poisson distributions. We also separately compare the cumulative distribution functions of the barred and unbarred galaxies as a function of their local density. Using a Kolmogorov–Smirnov test, we find that the null hypothesis cannot be rejected even at $75{{\ \rm per\ cent}}$ confidence level. Our analysis indicates that environments do not play a significant role in the formation of a bar, which is largely determined by the internal processes of the host galaxy.


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