research papers
Data analysis method to achieve sub-10 pm spatial resolution using extended X-ray absorption fine-structure spectroscopy
aInstitute of Chemical and Engineering Sciences, A*STAR, Singapore 627833, Singapore, bInstitute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, People's Republic of China, cDepartment of Physics, Pennsylvania State University, University Park, PA 16802, USA, dInstitute of Geology and Geophysics, Chinese Academy of Sciences, Beijing 100029, People's Republic of China, and eDepartment of Chemistry, National University of Singapore, Singapore 117543, Singapore
*Correspondence e-mail: yonghua.du@gmail.com, yfwang@mail.iggcas.ac.cn
Obtaining sub-10 pm spatial resolution by extended X-ray absorption fine structure (EXAFS) spectroscopy is required in many important fields of research, such as etc. However, based on the existing data analysis methods, has a spatial resolution limit of π/2Δk which is larger than 0.1 Å. In this paper a new data analysis method which can easily achieve sub-10 pm resolution is introduced. Theoretically, the resolution limit of the method is three times better than that normally available. The method is examined by numerical simulation and experimental data. As a demonstration, the LaFe1–xCrxO3 system (x = 0, 1/3, 2/3) is studied and the structural information of FeO6 octahedral distortion as a function of Cr doping is resolved directly from where a resolution better than 0.074 Å is achieved.
studies in colossal magnetic resistance materials, high-temperature superconductivity materialsKeywords: EXAFS; spatial resolution; atom distribution function.
1. Introduction
et al., 1971) is a powerful technique for probing the local structure around absorbing atoms, which has been widely applied to material science, chemical engineering, environmental science and engineering, life science etc. However, there is still an unsolved limitation of insufficient spatial resolution. Based on the existing data analysis methods, has a resolution limit of (Lee et al., 1981; Teo, 1986), where is the spatial resolution and is the wavenumber in the data. For the typical case of oxygen as the nearest neighbours, is usually less than 15 Å−1, so the best spatial resolution is larger than 0.1 Å. Exceeding this limit may lead to unreliable results. Stern (2001) also emphasized that `any claim of a higher resolution (higher than 0.1 Å) of Δr for two O atoms should be suspect'.
(SayersHowever, sub-10 pm spatial resolution is required in many important fields of research, such as et al., 2010), high-temperature superconductivity materials (Saha et al., 2009), antiferromagnetic materials (de la Cruz et al., 2010) and multiferroic materials (Gupta et al., 2013). It is believed that the plays an important role in the special properties of these materials and a detailed structural analysis can help to better understand the physics of these materials. Scientists have applied to these materials. However, due to the insufficient resolution, they have to guess the number of atom shells for curve fitting (Haas et al., 2004; Pandey et al., 2006) which may lead to `suspect' results (Stern, 2001). Alternatively, they have to assume only one shell exists and focus on the Debye–Waller factor (DWF) (Booth et al., 1998; Sundaram et al., 2009; Chu et al., 2013), losing important structural information.
studies in colossal magnetic resistance (CMR) materials (SenIndeed, et al., 1999) for interatomic distance determination. The key issue is how to improve the spatial resolution. Several attempts to improve the resolution have been carried out using the regularization method (Tikhonov & Arsenin, 1981; Babanov et al., 1981; Yang & Bunker, 1996; Rossberg & Funke, 2010) and the wavelet method (Funke et al., 2007; Penfold et al., 2013). However, the improved resolution does not surpass the 0.1 Å limit. In one of the latest works, Rossberg & Funke (2010) attempted to resolve two peaks with Δr = 0.15 Å using the regularization method; however, they were unable to resolve these peaks directly. Although the regularization method has a higher spatial resolution than the Fourier transform (FT) method because it can reduce the peak broadening in r space caused by limited data in k-space, it cannot provide a spatial resolution better than 0.1 Å. The neutron/X-ray pair distribution function (PDF) method (Toby & Egami, 1992) is a powerful method for obtaining the PDF of samples with high spatial resolution, with the resolution limit of the PDF method being (Fábián et al., 2007), where Q = . In most cases, Qmax is smaller than 60 Å−1 so it is difficult to obtain sub-10 pm resolution using the PDF method.
is the ideal method to study because it is an element-sensitive method for crystalline and non-crystalline samples. Furthermore, it has an accuracy of 0.01–0.001 Å (DalbaThe regularization method cannot provide a sub-10 pm resolution due to the DWF. In the existing r-space significantly and, therefore, affecting the spatial resolution. In this paper, we raise a model which separates the DWF from the structure information, and propose an algorithm based on the gradient descent algorithm to solve this model. This algorithm is a non-parametrical algorithm which allows us to obtain structural information directly from data without assuming the number of fitting parameters. Our method is tested by numerical simulation and experimental data of the LaFe1–xCrxO3 system (x = 0, 1/3, 2/3). As a result, sub-10 pm spatial resolution is achieved.
data analysis models, the DWF is coupled with the structural information, broadening the peak of each atom shell in2. Modelling and algorithm description
The general
integral equation has the following form,where g(r) is a function which contains all structural information of the spectrum, including coordination numbers, bond lengths and DWF. The kernel function A is in the form
in which F(k,r) is the effective backscattering amplitude, S02 is the amplitude reduction factor, is the of the photoelectron, k is the photoelectron wavevector, r is the interatomic distance, is the phase shift due to the atomic potentials and is the function.
For the regularization method, g(r) is the target to be solved. As mentioned previously, g(r) contains all the structural information and the DWF. Therefore, the spatial resolution will be significantly decreased. Hence, we will separate the DWF from g(r), which will theoretically lead to a significantly higher spatial resolution than the regularization method.
Assuming that g(r) satisfies a Gaussian model (Rossberg & Funke, 2010),
Thus, the integral in (1) can be resolved analytically and, using justified approximations, is reduced to the equation for a given number of coordination shells (Sayers et al., 1971),
in which nj is the and is the DWF of the backscattering atoms in the jth shell. Converting to the integral form, (3) becomes
This is a new integral equation based on the Gaussian model. In (4), n(r) is named the atom distribution function (ADF). The ADF consists of one or more peaks. The position and area of each peak are the bond length and respectively. Theoretically, the ADF should be a δ function; however, in our case this convergence does not occur due to the restricted amount of data. Hence, the spatial resolution limit of this method is , following the uncertainty principle.
In this paper, we focus on the structural analysis of lattice distortions through the nearest shells to absorbing atoms (we name these atom shells as subshells in this contribution). The advantage is that .
data of the nearest subshells often have a better signal-to-noise ratio than high coordination shells and do not have multiple scattering signals. These atoms usually have the same atom species, close bond lengths and similar surrounding conditions. Therefore, all subshells can be assumed to have the same kernel function in (4)The remaining task is to reconstruct n(r) from the kernel function and data χ. For convenience, we rewrite (4) in a compact form,
where K is the operator of the kernel function that maps the distribution function into the observation space, and n is the ADF. Note that experimental data χ may contain noise; therefore, to solve for n(r), a constrained minimization problem is proposed,
subject to
To solve (6) subject to (7) and (8), the Lagrangian multiplier method or gradient descent method with projection could be applied. Here, we introduce an algorithm based on the gradient descent algorithm (Wang, 2007).
We denote f(n) = . To maintain non-negativity of n, we let n = exp(x). Therefore, f[exp(x)] = . This setting directly leads to the explicit non-negative constraints. The gradient can be deduced using the formula
which leads to the gradient formula
where .* denotes the component-wise product of two vectors. The gradient descent algorithm is based on the following formula,
where dk = -gk and is the step length such that = . Solving the minimization problem yields
where […,…] denotes the inner product of two vectors. Note that, for the non-negativity constraints, we require { > 0}, yielding
Therefore, the final step length should be = . The stopping criterion is based on the norm of the gradient and the maximum iteration number. A description of the algorithm is shown below.
2.1. Algorithm
(1) At the kth step, compute the gradient of the new objective function f[exp(x)] = : gk = , where nk = exp(xk) and .* denotes the component-wise product of two vectors.
(2) Generate the negative gradient direction: dk = -gk.
(3) Calculate the step length = + such that = 0}, where argmin means the one-dimensional line search for the parameter τ.
(4) Update the iterative points nk+1 = until convergence.
The final values of n and are obtained at the global minimum of equations (6)–(8).
3. Method testing
3.1. Numerical simulation
To test the resolution and reliability of our method, a numerical simulation was performed first. The parameters of this simulation were chosen based on the LaFeO3 structure (Sangaletti et al., 2001) to ensure that our method can work properly for LaFe1–xCrxO3 experimental data which will be applied in a later test.
The procedure to execute the numerical simulation is as follows.
(1) Build a simulated g(r) using equation (2).
(2) Calculate the simulated and add noise to .
data using equation (1)(3) Reconstruct the ADF using the noised data.
In the simulation, g(r) was built using a sum of three Gaussian peaks with n1 = n2 = n3 = 2, r1 = 1.923 Å, r2 = 2.013 Å, r3 = 2.086 Å. So, the minimum bond length difference is 0.074 Å. The DWF was fixed at 0.005. The backscattering amplitude F(k), the phase shift and the of the photoelectron were calculated from FEFF9 (Ankudinov et al., 1998). The reduction factor S02 was set as 1. The range of k was 2–14 Å−1. To ensure the stability of this method, random noise was added to . The random noise was produced by 10-4×randn(k), where is a function to generate normally distributed random numbers. Kernel K and data were both weighted by k3.
In Fig. 1(a), the solid line is the theoretical g(r). Three peaks have merged into a single peak and become indistinguishable. Fig. 1(b) shows the theoretical data with added noise and the fitting curve. The dashed line is a Hanning window for the FT with a window parameter of 20. Fig. 1(c) shows the reconstructed ADF and the phase- and amplitude-corrected FT spectrum (van Zon et al., 1984) of the simulated data. While the three peaks are indistinguishable using the FT method, they are successfully resolved by the ADF method. In the ADF method, the peak position and are the bond length and respectively. Calculated parameters are n1 = 2.0, n2 = 2.1, n3 = 2.0, r1 = 1.915 Å, r2 = 2.007 Å, r3 = 2.082 Å, = 0.0049 Å2, which are very close to the true values. The maximum bias of the bond length is only 0.008 Å. Considering that the noise added is higher than usually recorded in real experimental data and the results are close to the true values, our method should be regarded as stable and reliable.
3.2. Testing using the LaFe1–xCrxO3 system
For further testing of our method, perovskite materials were chosen. Perovskite materials exhibit many interesting properties from both theoretical and application points of view. CMR, ferroelectricity, superconductivity, charge ordering, spin-dependent transport and high thermopower are commonly observed features in this kind of material. As one of the most widely used perovskite structures, the perovskite oxides ABO3, containing a rare-earth metal on the A sites with 12-fold oxygen coordination and a transition metal on the B sites with six-fold oxygen coordination, exhibit a rich variety of unusual and interesting electronic, magnetic and structural properties (Andreasson et al., 2007). In this contribution, we chose the LaFe1–xCrxO3 system which is well known because of its `strange' magnetic behaviour (Ueda et al., 1998). For a long time, ferromagnetism (FM) was expected to be found in LaFe1–xCrxO3 but it was not observed until a LaFeO3–LaCrO3 was obtained in 1998 (Ueda et al., 1998). It is generally believed that FM is absent in such materials due to the fact that FM coupling of Fe–O–Cr has not been achieved when synthesizing such materials by sintering methods. The materials phase separates into Fe oxide and Cr oxide phases (Ueda et al., 1998; Wold & Croft, 1959). As a result, a ferromagnetic-ordered phase has not been obtained. In this work, powder samples of LaFe1–xCrxO3 (x = 0, 1/3, 2/3) were synthesized using a standard solid-state reaction method (Belayachi et al., 1996; Louca et al., 1999). X-ray diffraction spectra indicated that all samples crystallize in the perovskite structure with orthorhombic deformation, having a Pbnm (Wang et al., 2007).
The procedure to resolve the
data using our method is as follows.(1) Conventional E–k space conversion, -fit, Fourier transform and inverse Fourier transform (IFT). data analysis software, such as WinXAS, IFEFFIT etc., can be used to perform this.
data treatment, including background correction,(2) Reconstruct the ADF using filtered
data.In this example, WinXAS was used to carry out the conventional data analysis. For the IFT, the data range was set at 1.15–2.10 Å to filter the data of the first main peak which mainly consists of Fe–O octahedral coordinations. Fig. 2(a) shows the FT data of LaFe1–xCrxO3. Fig. 2(b) shows the filtered data of Fe–O peaks. All data were weighted by k3. Fig. 2(d) shows the reconstructed ADF. The calculated bond lengths of LaFeO3 were 1.919, 2.007 and 2.087 Å. The maximum error was 0.005 Å with the X-ray diffraction data of Sangaletti et al. (2001). Further detailed structure information is shown in Table 1. Based on the reconstructed ADF, a model of octahedral FeO6 with Cr doping was obtained and is shown in Fig. 2(e).
|
From Fig. 2(d) we can see that the Fe–O octahedral structure changes as a function of Cr doping. This is a clear evidence that Fe atoms were replaced by Cr atoms. Furthermore, the three FT spectra in Fig. 2(a) look similar, indicating that the three samples have similar structures. Combining the structural analysis of Fe–O and the FT spectra, our results indicate that ferromagnetic coupling of Fe–O–Cr is present and is not the real reason for the absence of FM in the LaFe1–xCrxO3 sample. In another paper (Belayachi et al., 1998), the authors found an unusual magnetic behaviour in LaFe1–xCrxO3 when x > 0.5. In Fig. 2(d), we can see that the Fe–O octahedral structure changes significantly when x = 2/3, indicating that the unusual magnetic behaviour may be related to the Fe–O octahedral distortion.
In this section, our method was examined by using theoretical data based on LaFeO3 and experimental data of LaFe1–xCrxO3, requiring a spatial resolution better than 0.074 Å. For theoretical data and LaFeO3 standard data, the three subshells were resolved clearly and the maximum bond length errors were only 0.008 Å and 0.005 Å, respectively. This clearly indicates that our method has good spatial resolution and the calculated results are reliable.
4. Discussion and summary
MO6 octahedral distortion. Regarding the algorithm to resolve equations (6)–(8), the one we have introduced in this paper is based on the gradient descent algorithm. The testing of our method to analyze numerical simulation data shows that a resolution better than 6 pm cannot be obtained using 12 Å−1 data (the theoretical resolution limit is about 4.2 pm). For the next step, we will apply the regularization method to resolve equations (6)–(8) in an attempt to achieve a closer approximation to the resolution limit.
is an advanced technique which is sensitive to local structure around the absorbing atoms. In this paper, we focus on the nearest subshells only and achieve a spatial resolution higher than 0.1 Å. To obtain sub-10 pm resolution, our method requires the same atom species of the subshells, otherwise the kernel function cannot be regarded as the same for different subshells and the algorithm cannot be applied. Therefore our method is suitable for studyingIn summary, we have developed a new −1 range or higher easily using advanced synchrotron radiation facilities. Furthermore, our method can be easily extended to study caused by vacancy, temperature, pressure and size effects or other systems which require high spatial resolution. Our method is expected to help scientists to understand the relationship between material properties and structures at the limit potential of EXAFS.
data analysis method which is based on a non-parametrical algorithm allowing one to obtain structural information directly from data without assuming the number of fitting parameters. Theoretically, the resolution limit of our method is , which is three times better than the existing methods. Hence, we are able to perform structural analysis at the 4.2 pm scale or smaller using as we can collect data over a 12 ÅFootnotes
‡These authors contributed equally to this work.
Acknowledgements
EXAFS data were collected at beamline 1W1B of the Beijing Synchrotron Radiation Facility and the XAFCA facility at Singapore Synchrotron Light Source. The authors are very grateful to Professor Yuhui Dong, Professor Jing Zhang, Professor Gopinathan Sankar, Dr Tao Liu and Dr Ping Yang for the stimulating discussions. This research was financially supported by the Strategic Priority Research Program of the Chinese Academy of Science (Grant No. XDB10020100) and the Agency for Science, Technology and Research (A*Star) of Singapore.
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