<?xml version="1.0" encoding="UTF-8"?><!DOCTYPE article  PUBLIC "-//NLM//DTD Journal Publishing DTD v3.0 20080202//EN" "http://dtd.nlm.nih.gov/publishing/3.0/journalpublishing3.dtd"><article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" dtd-version="3.0" xml:lang="en" article-type="research article"><front><journal-meta><journal-id journal-id-type="publisher-id">NJGC</journal-id><journal-title-group><journal-title>New Journal of Glass and Ceramics</journal-title></journal-title-group><issn pub-type="epub">2161-7554</issn><publisher><publisher-name>Scientific Research Publishing</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.4236/njgc.2015.53005</article-id><article-id pub-id-type="publisher-id">NJGC-57470</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Chemistry&amp;Materials Science</subject></subj-group></article-categories><title-group><article-title>
 
 
  Reverse Monte Carlo Modeling of the Rigidity Percolation Threshold in Ge&lt;SUB&gt;x&lt;/SUB&gt;Se&lt;SUB&gt;1-x&lt;/SUB&gt; Glassy Networks
 
</article-title></title-group><contrib-group><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>oneeb</surname><given-names>T. M. Shatnawi</given-names></name><xref ref-type="aff" rid="aff1"><sub>1</sub></xref></contrib></contrib-group><aff id="aff1"><label>1</label><addr-line>Department of Physics, Faculty of Science, The University of Jordan, Amman, Jordan</addr-line></aff><author-notes><corresp id="cor1">* E-mail:</corresp></author-notes><pub-date pub-type="epub"><day>02</day><month>06</month><year>2015</year></pub-date><volume>05</volume><issue>03</issue><fpage>31</fpage><lpage>43</lpage><history><date date-type="received"><day>1</day>	<month>April</month>	<year>2015</year></date><date date-type="rev-recd"><day>accepted</day>	<month>23</month>	<year>June</year>	</date><date date-type="accepted"><day>26</day>	<month>June</month>	<year>2015</year></date></history><permissions><copyright-statement>&#169; Copyright  2014 by authors and Scientific Research Publishing Inc. </copyright-statement><copyright-year>2014</copyright-year><license><license-p>This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/</license-p></license></permissions><abstract><p>
 
 
  Based on Maxwell’s constraint counting theory, rigidity percolation in 
  Ge<sub>x</sub>Se<sub>1-x</sub> glasses occurs when the mean coordination number reaches the value of 2.4. This corresponds to 
  Ge
  <sub>0.20</sub>
  Se
  <sub>0.80</sub> glass. At this composition, the number of constraints experienced by an atom equals the number of degrees of freedom in three dimensions. Hence, at this composition, the network changes from a floppy phase to a rigid phase, and rigidity starts to percolate. In this work, we use reverse Monte Carlo (RMC) modeling to model the structure of 
  Ge
  <sub>0.20</sub>
  Se
  <sub>0.80</sub> glass by simulating its experimental total atomic pair distribution function (PDF) obtained via high energy synchrotron radiation. A three-dimensional configuration of 2836 atoms was obtained, from which we extracted the partial atomic pair distribution functions associated with Ge-Ge, Ge-Se and Se-Se real space correlations that are hard to extract experimentally from total scattering methods. Bond angle distributions, coordination numbers, mean coordination numbers and the number of floppy modes were also extracted and discussed. More structural insights about network topology at this composition were illustrated. The results indicate that in Ge
  <sub>0.20</sub>Se
  <sub>0.80</sub> glass, Ge atoms break up and cross-link the Se chain structure, and form structural units that are four-fold coordinated (the GeSe
  <sub>4</sub> tetrahedra). These tetrahedra form the basic building block and are connected via shared Se atoms or short Se chains. The extent of the intermediate ranged oscillations in real space (as extracted from the width of the first sharp diffraction peak) was found to be around 19.6 
  ?. The bonding schemes in this glass are consistent with the so-called “8-N” rule and can be interpreted in terms of a chemically ordered network model. 
 
</p></abstract><kwd-group><kwd>Chalcogenide Glasses</kwd><kwd> Rigidity Percolation</kwd><kwd> Reverse Monte Carlo Modeling</kwd><kwd> Atomic Pair Distribution Function (PDF)</kwd><kwd> Ge&lt;SUB&gt;x&lt;/SUB&gt;Se&lt;SUB&gt;1-x&lt;/SUB&gt; Glasses</kwd></kwd-group></article-meta></front><body><sec id="s1"><title>1. Introduction</title><p>Amorphous materials in general and amorphous chalcogenide glasses in particular play an essential rule in technological applications. Examples include infrared detectors, lenses and infrared optical fibers [<xref ref-type="bibr" rid="scirp.57470-ref1">1</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref2">2</xref>] . Chalcogenide glasses, especially when doped with rare earth ions, have high refractive index, low phonon energy and high nonlinearity [<xref ref-type="bibr" rid="scirp.57470-ref3">3</xref>] . These physical properties make them superior in lasers, photonic integrated circuits and photon-induced refraction [<xref ref-type="bibr" rid="scirp.57470-ref4">4</xref>] . Amorphous chalcogenide semiconductors have also found emerging applications in electrical switches, based on their phase changes through an intense voltage or heat pulses [<xref ref-type="bibr" rid="scirp.57470-ref5">5</xref>] .</p><p>Deep understanding of the local structure of amorphous chalcogenides helps understand their remarkable physical and chemical properties and gives more insights about possible combinations to produce and design new useful materials.</p><p>In this paper, we focus on rigidity transition in binary chalcogenide glasses. Rigidity theory [<xref ref-type="bibr" rid="scirp.57470-ref6">6</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref8">8</xref>] predicts the mechanical properties of network glasses based on their chemical composition. In network glasses, interatomic distances and bond angles are fixed around their average values due to radial 2-body bond-stretching and angular 3-body bond-bending constraints, respectively. In this theory, J. C. Phillips [<xref ref-type="bibr" rid="scirp.57470-ref6">6</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref7">7</xref>] introduced counting the average constraints experienced by each atom in the network. In three dimensions, a network is considered as floppy, when the average number of constraints per atom (n<sub>c</sub>) is less than 3 (the number of degrees of freedom per atom in 3 dimensions), and is considered as stressed-rigid if n<sub>c</sub> is greater than 3. The network is considered as isostatic when<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x5.png" xlink:type="simple"/></inline-formula>.</p><p>Simple enumeration of the average number of constraints experienced by an atom in a glassy network can predict its mechanical property, as well as the optimal isostatic composition, in which the network is rigid but stress-free. Rigidity theory has been applied to tetrahedral network glasses with changing composition and it was found that glass formation is optimal if the network is isostatic [<xref ref-type="bibr" rid="scirp.57470-ref9">9</xref>] .</p><p>The mean coordination number, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x6.png" xlink:type="simple"/></inline-formula>(which should be distinguished from n<sub>c</sub>), plays an important role in determining connectivity and rigidity of a network. In the case of a covalently bonded binary alloy with general formula A<sub>x</sub>B<sub>1</sub><sub>-</sub><sub>x</sub>, the value of <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x7.png" xlink:type="simple"/></inline-formula> is given by:</p><disp-formula id="scirp.57470-formula815"><label>(1)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x8.png"  xlink:type="simple"/></disp-formula><p>In the mean-field approach, one considers a network of N atoms composed of <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x9.png" xlink:type="simple"/></inline-formula> atoms that are r-fold coordinated. The enumeration of mechanical constraints in this system gives r/2 bond-stretching constraints and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x10.png" xlink:type="simple"/></inline-formula> bond-bending constraints [<xref ref-type="bibr" rid="scirp.57470-ref6">6</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref7">7</xref>] .</p><p>The number of floppy modes, f, in a network of N atoms equals the difference between the total number of degrees of freedom (3N) and the total number of constraints present in the network, as given by [<xref ref-type="bibr" rid="scirp.57470-ref8">8</xref>] :</p><disp-formula id="scirp.57470-formula816"><label>(2)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x11.png"  xlink:type="simple"/></disp-formula><p>where n<sub>r</sub> is the number of r-fold coordinated atoms. This reduces to:</p><disp-formula id="scirp.57470-formula817"><label>(3)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x12.png"  xlink:type="simple"/></disp-formula><p>This number of floppy modes, f, vanishes when<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x13.png" xlink:type="simple"/></inline-formula>. At<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x14.png" xlink:type="simple"/></inline-formula>, the glassy network is stable and has a mechanical threshold or critical composition at which the network changes from an elastically floppy type to a rigid type. Many experimental results confirm the mean-filed predictions and show responses to the rigidity percolation threshold [<xref ref-type="bibr" rid="scirp.57470-ref10">10</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref12">12</xref>] .</p><p>Among all chalcogenide glasses, the covalently bonded Ge<sub>x</sub>Se<sub>1</sub><sub>-</sub><sub>x</sub> system is of special interest. This system can be made as glasses over a wide composition range (<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x15.png" xlink:type="simple"/></inline-formula>to 0.42 atm.% germanium) [<xref ref-type="bibr" rid="scirp.57470-ref1">1</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref2">2</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref13">13</xref>] . This allows one to systematically tune its mechanical properties and network connectivity by altering the Ge:Se ratio. Rigidity percolation in Ge<sub>x</sub>Se<sub>1</sub><sub>-</sub><sub>x</sub> glasses occurs at Ge<sub>0.20</sub>Se<sub>0.80</sub> where at this composition the value of<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x16.png" xlink:type="simple"/></inline-formula>. Despite the fact that many dramatic experimental findings were reported to occur at this composition [<xref ref-type="bibr" rid="scirp.57470-ref14">14</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref17">17</xref>] , very little information is known about the local structure of this important particular composition, as many experimental [<xref ref-type="bibr" rid="scirp.57470-ref18">18</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref23">23</xref>] and theoretical [<xref ref-type="bibr" rid="scirp.57470-ref23">23</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref28">28</xref>] studies focused on the stoicheometric composition GeSe<sub>2</sub> glass. Hence, a detailed determination of the local structure of Ge<sub>0.20</sub>Se<sub>0.80</sub> glass is essential for understanding the onset of rigidity. Crucial questions whether Ge<sub>0.20</sub>Se<sub>0.80</sub> glass forms a chemically ordered or a covalently random network and the possibility of broken chemical order remain subjects of concern.</p><p>The purpose of this paper is to build a structural model of the rigidity percolation threshold (Ge<sub>0.20</sub>Se<sub>0.80</sub>) glass from which we can extract different structural parameters that may resolve some controversial structural aspects. So, in this work, we study the short- and intermediate-range orders of Ge<sub>0.20</sub>Se<sub>0.80</sub> glass using Reverse Monte Carlo (RMC) modeling by simulating its experimental total atomic pair distribution function (PDF). To the best of our knowledge, this is the first RMC modeling done on melt-quenched Ge<sub>0.20</sub>Se<sub>0.80</sub> glass through directly simulating its high resolution real-space PDF data, obtained via high energy synchrotron radiation. In the following we give a brief theoretical account about PDF technique and RMC modeling.</p></sec><sec id="s2"><title>2. Theory</title><sec id="s2_1"><title>2.1. The PDF Method</title><p>The atomic pair distribution function (PDF) technique is a total scattering technique that gives the local structural environment at the atomic scale. PDF technique allows for both the Bragg and diffuse scattering to be analyzed together on equal terms, revealing the short and intermediate range orders of the material [<xref ref-type="bibr" rid="scirp.57470-ref29">29</xref>] .</p><p>The atomic PDF, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x17.png" xlink:type="simple"/></inline-formula>, is defined as:</p><disp-formula id="scirp.57470-formula818"><label>(4)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x18.png"  xlink:type="simple"/></disp-formula><p>where <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x19.png" xlink:type="simple"/></inline-formula> is the average atomic number density, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x20.png" xlink:type="simple"/></inline-formula>is the atomic pair-density, and r is the radial distance.</p><p>The function <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x21.png" xlink:type="simple"/></inline-formula> is experimentally accessible and gives information about the number of atoms in a spherical shell of unit thickness at a distance r from a reference atom. It peaks at characteristic distances separating pairs of atoms, as shown schematically in <xref ref-type="fig" rid="fig1">Figure 1</xref>.</p><p>The PDF <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x22.png" xlink:type="simple"/></inline-formula> is related to the measured X-ray or neutron diffraction pattern through a Fourier transform:</p><disp-formula id="scirp.57470-formula819"><label>(5)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x23.png"  xlink:type="simple"/></disp-formula><p>where Q is the magnitude of the scattering vector, and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x24.png" xlink:type="simple"/></inline-formula> is the total scattering structure function which contains the measured diffracted intensities of the material. The quantity <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x24.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x25.png" xlink:type="simple"/></inline-formula> is denoted by <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x24.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x25.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x26.png" xlink:type="simple"/></inline-formula> and is called the reduced structure function.</p><p>The structure function is related to the coherent part of the total scattering intensity of the material, and is given by [<xref ref-type="bibr" rid="scirp.57470-ref29">29</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref30">30</xref>] :</p><fig id="fig1"  position="float"><label><xref ref-type="fig" rid="fig1">Figure 1</xref></label><caption><title> Illustration of the structural origin of peaks in the atomic pair distribution function, G(r), for an amorphous material</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x27.png"/></fig><disp-formula id="scirp.57470-formula820"><label>(6)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x28.png"  xlink:type="simple"/></disp-formula><p>where <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x29.png" xlink:type="simple"/></inline-formula> is the measured scattering intensity from a sample that has been properly corrected for background and other experimental effects and normalized by the flux and the amount of the sample in the beam. Here, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x29.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x30.png" xlink:type="simple"/></inline-formula>and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x29.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x30.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x31.png" xlink:type="simple"/></inline-formula> are the atomic concentration and X-ray atomic form factor, respectively, for the atomic species of type i.</p><p>As can be seen from Equations (4)-(6), <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x32.png" xlink:type="simple"/></inline-formula>is simply another representation of the diffraction data. However, exploring the diffraction data in real space has advantages especially in the case of materials with significant structural disorder [<xref ref-type="bibr" rid="scirp.57470-ref29">29</xref>] .</p><p>Modeling of the PDF data does not presume periodicity. Therefore, PDF technique is particularly useful for characterizing aperiodic distortions in crystals, analysis of nano structures and glasses.</p><p>Improper corrections in PDF data reduction result in distortions to <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x33.png" xlink:type="simple"/></inline-formula> but these distortions vary much more slowly than the signal and are manifested as sharp peaks at very low-r in the PDF in a region (typically &lt; 1.0 &#197;) where no structural information exists [<xref ref-type="bibr" rid="scirp.57470-ref29">29</xref>] .</p><p>Coordination numbers and partial coordination numbers are extracted through integrating the corresponding peaks in the so-called radial distribution function (RDF), which is related to <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x34.png" xlink:type="simple"/></inline-formula> by:</p><disp-formula id="scirp.57470-formula821"><label>(7)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x35.png"  xlink:type="simple"/></disp-formula></sec><sec id="s2_2"><title>2.2. The RMC Method</title><p>Reverse Monte Carlo (RMC) is an important structural modeling method based on experimental data. It began as a method for creating three-dimensional models of liquid structures. It has been developed considerably since then, and its applications have been applied to include crystalline, amorphous structures and magnetic materials [<xref ref-type="bibr" rid="scirp.57470-ref31">31</xref>] . A comprehensive review on the subject has been performed by Robert McGreevy [<xref ref-type="bibr" rid="scirp.57470-ref32">32</xref>] .</p><p>The general theme of this method is based on building a three dimensional structural configuration of atoms that have their calculated correlation functions consistent to some extent with the experimental ones. In RMC modeling, a set of points (atoms) are placed in a cubical box of edge-length L, with periodic boundary conditions. The types of the atoms in the box, their relative concentrations as well as their number densities are determined to be consistent with the material being modeled.</p><p>A set of experimental data, either in Q-space or in real space can be simulated. Starting from a completely random configuration of atoms, an atom is chosen randomly and moved a specific distance. Every time an atom is moved, the correlation functions are calculated from the new configuration and compared with the corresponding experimental correlation functions. If the move increases the agreement between the calculated and experimental data, the move is accepted, otherwise, it is accepted with some probability.</p><p>A set of physical structural constraints are inserted in the simulation process so as to improve the fit. These include the distance of closest approach, where no two atoms can come closer to each other by this distance. Coordination number constraints that are consistent with the chemistry of the material may also be inserted in the modeling process. These constraints aim towards improving the fit and making the resulting configuration more and more reasonable.</p><p>In RMC modeling, the RMC-calculated total PDF <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x36.png" xlink:type="simple"/></inline-formula> is given by:</p><disp-formula id="scirp.57470-formula822"><label>(8)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x37.png"  xlink:type="simple"/></disp-formula><p>where <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x38.png" xlink:type="simple"/></inline-formula> is the number of atoms between r and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x38.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x39.png" xlink:type="simple"/></inline-formula> from the central atom, averaged over all atoms, and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x38.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x39.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x40.png" xlink:type="simple"/></inline-formula> is the average atomic number density.</p><p>Similarly, for a model of two atom types i and j, the RMC-calculated partial PDF <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x41.png" xlink:type="simple"/></inline-formula> is given by:</p><disp-formula id="scirp.57470-formula823"><label>(9)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x42.png"  xlink:type="simple"/></disp-formula><p>Here, the <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x43.png" xlink:type="simple"/></inline-formula> is the number of atoms of type j, between r and<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x43.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x44.png" xlink:type="simple"/></inline-formula>, that are exist around the central atom of type i averaged over all atoms of type i.</p><p>The function to be minimized during each atom move is:</p><disp-formula id="scirp.57470-formula824"><label>(10)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x45.png"  xlink:type="simple"/></disp-formula><p>Here the sum is over m experimental points and <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x46.png" xlink:type="simple"/></inline-formula> is related to the experimental error in the PDF data. Any move that decreases <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x46.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x47.png" xlink:type="simple"/></inline-formula> is always accepted, if the move increases <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x46.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x47.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x48.png" xlink:type="simple"/></inline-formula> it is accepted with a probability given by<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x46.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x47.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x48.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x49.png" xlink:type="simple"/></inline-formula>. The process of moving atoms around continues until <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x46.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x47.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x48.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x49.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x50.png" xlink:type="simple"/></inline-formula> has reached an equilibrium value. The resulting RMC-generated configuration should be consistent with the experimental data within experimental errors.</p><p>Once the model is obtained, many structural parameters can be directly calculated, such as the partial coordination numbers, average coordination number, partial atomic pair distribution functions<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x51.png" xlink:type="simple"/></inline-formula>, partial structure functions<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x51.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x52.png" xlink:type="simple"/></inline-formula>, and the bond angle distributions<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x51.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x52.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x53.png" xlink:type="simple"/></inline-formula>.</p><p>It should be noted that the RMC-generated structural models are never unique. This should not be considered as a weakness of the method. RMC modeling is not supposed to give the structure of a given material, it just solves some questions about the structure of the material, and gives more insights about interpretation of the simulated experimental data. What we should look at it in RMC modeling is weather the generated model is useful or not. Does it give more insights into the structure or properties of the material that would not have been obtained without the model?</p></sec></sec><sec id="s3"><title>3. Experimental</title><sec id="s3_1"><title>3.1. The PDF Experiment</title><p>The Ge<sub>0.20</sub>Se<sub>0.80</sub> glass was prepared using conventional melt quenching process. The details of the preparation and characterization process of the glass as well as the X-ray diffraction experiment performed on it are all mentioned in a previous publication [<xref ref-type="bibr" rid="scirp.57470-ref33">33</xref>] .</p><p>It should be noted that the use of high-energy X-ray synchrotron radiation (87.005 keV (<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x54.png" xlink:type="simple"/></inline-formula>&#197;)) at the MUCAT 6-ID-D beam line at the Advanced Photon Source (APS) allowed us to access a high value of wave vector Q of 26 &#197;<sup>-</sup><sup>1</sup>, where Q is the magnitude of the scattering vector, and is given by:<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x54.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x55.png" xlink:type="simple"/></inline-formula>. This allowed us to reduce several unwanted experimental effects such as absorption and multiple scattering, which in turn had a great impact on the real space resolution of the obtained PDF.</p><p>The measured reduced structure function, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x56.png" xlink:type="simple"/></inline-formula>, and the corresponding atomic pair distribution function, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x56.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x57.png" xlink:type="simple"/></inline-formula>, for the Ge<sub>0.20</sub>Se<sub>0.80</sub> glass are plotted in <xref ref-type="fig" rid="fig2">Figure 2</xref>.</p><p>The curves in <xref ref-type="fig" rid="fig2">Figure 2</xref> have not been smoothed and the low level of noise in<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x58.png" xlink:type="simple"/></inline-formula>, even at high-Q values, is apparent, which indicates that the experimental data are adequate and the raw data reduction was effective.</p><fig-group id="fig2"><label><xref ref-type="fig" rid="fig2">Figure 2</xref></label><caption><title> (a) The experimental reduced structure function, F(Q) and (b) the experimental atomic pair distribution function, G(r), for the Ge<sub>0</sub><sub>.</sub><sub>20</sub>Se<sub>0</sub><sub>.</sub><sub>80</sub> glass.</title></caption><fig id ="fig2_1"><label> (b)</label><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x59.png"/></fig></fig-group><p>The high real space resolution of the current data set makes the analysis and the interpretations of the different peaks unambiguous.</p></sec><sec id="s3_2"><title>3.2. The RMC Modeling</title><p>In the current RMC modeling process, we followed the following simulation protocol. A set of 2836 atoms were generated randomly inside a box of edge-length of 43.44 &#197;. This results in an average number density of 0.0346 atoms/&#197;<sup>3</sup>, which is comparable with the experimental value of Ge<sub>0.20</sub>Se<sub>0.80</sub> glass. From the 2836 atoms, 567 atoms were assigned to represent Ge and the remaining 2269 atoms were assigned to represent Se. These assignments mimics the concentrations of Ge and Se in Ge<sub>0.20</sub>Se<sub>0.80</sub>. RMCA program [<xref ref-type="bibr" rid="scirp.57470-ref34">34</xref>] was used in the modeling process. Initially, the program ran for 48 hours without any constraints to ensure the non existence of any memory effects. After that, the cut off distance (distance of closest approach) constraint as well as the coordination constraints were inserted in the simulation process. The coordination constraints we used are consistent with the Mott’s “8-N” rule [<xref ref-type="bibr" rid="scirp.57470-ref35">35</xref>] , where N is the number of valence electrons in the corresponding atom. Thus, two coordination constraints were assigned such that each Ge atom is 4-fold coordinated and each Se atom is 2-fold coordinated. In this protocol, the experimental total atomic pair distribution function (PDF<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x60.png" xlink:type="simple"/></inline-formula>) was directly simulated. The program ran for a week after which the value of <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x60.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x61.png" xlink:type="simple"/></inline-formula> began to saturate and reached a stable limit of around 1.0.</p></sec></sec><sec id="s4"><title>4. Results and Discussion</title><p>The quality of RMC simulation to the experimental total atomic pair distribution function (<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x62.png" xlink:type="simple"/></inline-formula>) is shown in <xref ref-type="fig" rid="fig3">Figure 3</xref>, from which we see excellent agreement between the experimental and calculated data. This is obvious from the difference curve that is plotted offset below the two curves. The RMC-generated structural model is able to reproduce the positions, shapes and intensities of all the peaks in the experimental <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x62.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x63.png" xlink:type="simple"/></inline-formula> that extend till about 10 &#197;. It should be noted that the peaks in <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x62.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x63.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x64.png" xlink:type="simple"/></inline-formula> below 2.13 &#197; (the lower side of the first real peak) are unphysical, and they are due to terminating the Fourier transform at<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x62.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x63.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x64.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x65.png" xlink:type="simple"/></inline-formula>. These peaks are considered as termination ripples and they were ignored in the simulation process.</p><p>The obtained three-dimensional RMC configuration was tested for homogeneity, and structural defects, such as dangling bonds and it was found to be homogenous and reasonable. <xref ref-type="fig" rid="fig4">Figure 4</xref> shows a snap shot representation of the RMC-generated structural model of Ge<sub>0.20</sub>Se<sub>0.80</sub> as well as the Ge and Se sub-networks. The calculated PDF from the RMC-generated model <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x66.png" xlink:type="simple"/></inline-formula> was then Fourier transformed to obtain the calculated reduced structure function<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x66.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x67.png" xlink:type="simple"/></inline-formula>. <xref ref-type="fig" rid="fig5">Figure 5</xref> shows a comparison between the experimental and calculated reduced structure functions. It is evident from <xref ref-type="fig" rid="fig5">Figure 5</xref> that the calculated <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x66.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x67.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x68.png" xlink:type="simple"/></inline-formula> has a very good agreement with the experimental data regarding peak positions, especially for the first sharp diffraction peak, which is denoted by FSDP and indicated by an arrow in the inset of <xref ref-type="fig" rid="fig5">Figure 5</xref>. The FSDP has been a subject of debate in network glasses for its anomalies behavior [<xref ref-type="bibr" rid="scirp.57470-ref36">36</xref>] - [<xref ref-type="bibr" rid="scirp.57470-ref38">38</xref>] , and so its origin remains controversial, despite the qualitative</p><fig id="fig3"  position="float"><label><xref ref-type="fig" rid="fig3">Figure 3</xref></label><caption><title> Experimental (open circles) and calculated (solid line) total atomic pair distribution functions (G(r)) for Ge<sub>0</sub><sub>.</sub><sub>20</sub>Se<sub>0</sub><sub>.</sub><sub>80</sub> glass. The difference curve is plotted offset below the two curves. Unphysical peaks below 2.13 &#197; were ignored in the simulation</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x69.png"/></fig><fig-group id="fig4"><label><xref ref-type="fig" rid="fig4">Figure 4</xref></label><caption><title> (a) The RMC-generated structural model of Ge<sub>0.20</sub>Se<sub>0.80</sub> glass. (b) and (c) are the Ge and Se sub- networks in the RMC-generated structural model, respectively.</title></caption><fig id ="fig4_1"><label> (b)</label><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x70.png"/></fig></fig-group><fig id="fig5"  position="float"><label><xref ref-type="fig" rid="fig5">Figure 5</xref></label><caption><title> Experimental (open circles) and calculated (solid line) reduced structure functions (F(Q)) for Ge<sub>0</sub><sub>.</sub><sub>20</sub>Se<sub>0</sub><sub>.</sub><sub>80</sub> glass</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x71.png"/></fig><p>agreement that it is a signature of intermediate range order (IRO) in network glasses [<xref ref-type="bibr" rid="scirp.57470-ref39">39</xref>] . The small hump in the calculated <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x72.png" xlink:type="simple"/></inline-formula> at the location of the FSDP indicates that the generated model preserves correlations in the IRO that are responsible for the appearance of the FSDP. The excellent reproducibility of peak positions in the <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x72.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x73.png" xlink:type="simple"/></inline-formula> data, especially at high Q range, indicates that the short range order is very well reproduced, and the nearest neighbour bond lengths are accurate. However, the calculated <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x72.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x73.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x74.png" xlink:type="simple"/></inline-formula> data have their peaks lower in amplitudes than the corresponding experimental ones, which is due to the finite size of the generated model. So larger models (~100,000 atoms) can improve the simulation process.</p><p>The resulting RMC configuration was then used to calculate the full set of partial atomic pair distribution functions:<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x75.png" xlink:type="simple"/></inline-formula>, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x75.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x76.png" xlink:type="simple"/></inline-formula>and<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x75.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x76.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x77.png" xlink:type="simple"/></inline-formula>. These partials were calculated using Equation 9, and are shown in <xref ref-type="fig" rid="fig6">Figure 6</xref>. From these partials, it is evident that the first PDF peak at 2.36 &#197; is mainly due to Ge-Se hetropolar bonds, and partially due to Se-Se homopolar bonds. The little hump in <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x75.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x76.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x77.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x78.png" xlink:type="simple"/></inline-formula> at 2.36 &#197; indicates the existence of very few Ge-Ge homopolar bonds. Structural correlations beyond the short range order can be clearly identified in the different partial PDFs and they extend till about 8 &#197;.</p><p>These partial PDFs, when summed up with proper averaging, gives the total atomic pair distribution function (G(r)). The advantage of the obtained RMC model, is that it enabled us to decompose G(r) into three sets of known origin. Structural correlations responsible for each peak in each partial PDF are now very well known and can be easily interpreted.</p><p>Many experimental findings [<xref ref-type="bibr" rid="scirp.57470-ref20">20</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref27">27</xref>] indicated that GeSe<sub>4</sub> tetrahedra form the basic building blocks in Ge-Se networks. To test the validity of this assumption, we have extracted the relevant distances from the corresponding partial PDFs shown in <xref ref-type="fig" rid="fig6">Figure 6</xref>. Ge-Se nearest neighbour distance occurs at <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula> &#197; as extracted from the position of the first PDF peak in<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x80.png" xlink:type="simple"/></inline-formula>. Also, the Se-Se second neighbour distance occurs at <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x80.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x81.png" xlink:type="simple"/></inline-formula> &#197; as extracted from the position of the second peak in<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x80.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x81.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x82.png" xlink:type="simple"/></inline-formula>. The ratio <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x80.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x81.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x82.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x83.png" xlink:type="simple"/></inline-formula> is consistent with the ideal tetrahedral ratio of<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x79.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x80.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x81.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x82.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x83.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x84.png" xlink:type="simple"/></inline-formula>. This indicates that GeSe<sub>4</sub> tetrahedra form the basic building blocks in Ge<sub>0.20</sub>Se<sub>0.80</sub> glass. Another proof of this fact is extracted from the bond angle distributions, discussed later in this paper.</p><p>Two competing structural models were proposed for these glasses. The first model is the chemically ordered network (CON) model [<xref ref-type="bibr" rid="scirp.57470-ref40">40</xref>] where all atoms are coordinated according to the “8-N” rule, and the number of hetropolar bonds is maximized. The second model is the random covalent network (RCN) [<xref ref-type="bibr" rid="scirp.57470-ref41">41</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref42">42</xref>] at which there is no preference for either homopolar or hetropolar bonds, and the distribution of bond types is purely statistical. Both the CON and the RCN models give the same mean coordination number of <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x85.png" xlink:type="simple"/></inline-formula> (a condition that must be satisfied if, in accordance with the “8-N” rule, Ge is fourfold coordinated and Se is twofold coordinated in Ge<sub>x</sub>Se<sub>1</sub><sub>-</sub><sub>x</sub> glasses).</p><p>In order to extract the partial coordination numbers <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x86.png" xlink:type="simple"/></inline-formula> (this notation denotes the coordination of an atom of specie i by atoms of specie j), partial radial distribution functions <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x86.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x87.png" xlink:type="simple"/></inline-formula> were calculated through:</p><disp-formula id="scirp.57470-formula825"><label>(11)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x88.png"  xlink:type="simple"/></disp-formula><p>and the corresponding peaks in these partials were then integrated. <xref ref-type="fig" rid="fig7">Figure 7</xref> shows the calculated partial coordination numbers as obtained by the current RMC modeling together with the expected values via the CON and the RCN models.</p><p>It is very clear, as can be seen from <xref ref-type="fig" rid="fig7">Figure 7</xref> that the RMC-generated model is very close and consistent with the CON model, where the Ge atoms are four-fold coordinated to Se atoms to form GeSe<sub>4</sub> tetrahedra, with some amount of Se atoms are necessarily forced to form homopolar Se bonds. Having said that the structure of Ge<sub>0.20</sub>Se<sub>0.80</sub> glass is consistent with the CON model does not fully characterize the short range order in this glass, as there are many different bonding configurations at which the GeSe<sub>4</sub> tetrahedra can link together, as we will see shortly.</p><p>Integration of the first peaks in partial RDFs yields that<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula>, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula>, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula>and<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x92.png" xlink:type="simple"/></inline-formula>. Based on these values, <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x92.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x93.png" xlink:type="simple"/></inline-formula>and<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x92.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x93.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x94.png" xlink:type="simple"/></inline-formula>, and this results in a mean coordination number of<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x92.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x93.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x94.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x95.png" xlink:type="simple"/></inline-formula>. Here <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x89.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x90.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x91.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x92.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x93.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x94.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x95.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x96.png" xlink:type="simple"/></inline-formula> is calculated through:</p><disp-formula id="scirp.57470-formula826"><label>(12)</label><graphic position="anchor" xlink:href="http://html.scirp.org/file/2-1030118x97.png"  xlink:type="simple"/></disp-formula><p>Hence, the number of floppy modes, as given by Equation (3), vanishes for the Ge<sub>0.20</sub>Se<sub>0.80</sub> glass, which indicates that its network is rigid. The above results are also consistent with the “8-N” rule, where we found that Ge</p><fig id="fig6"  position="float"><label><xref ref-type="fig" rid="fig6">Figure 6</xref></label><caption><title> Partial atomic pair distribution functions <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x99.png" xlink:type="simple"/></inline-formula> for Ge<sub>0</sub><sub>.</sub><sub>20</sub>Se<sub>0</sub><sub>.</sub><sub>80</sub> glass calculated from the RMC-generated model. The curves are shifted up for clarity</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x98.png"/></fig><p>is 4-fold coordinated and Se is 2-fold coordinated.</p><p>The structure of amorphous Se consists mainly of Se chains with some few rings [<xref ref-type="bibr" rid="scirp.57470-ref43">43</xref>] . Each Se atom is bound to two other Se, in accordance with the “8-N” rule, at a distance of 2.34(2) &#197;. When 20 atm.% Ge is added to Se to form amorphous Ge<sub>0.20</sub>Se<sub>0.80</sub> glass, Ge atoms break-up and cross link the Se chain structure, and form structural units that are four-fold coordinated (i.e. the GeSe<sub>4</sub> tetrahedral units). Existence of Se-Se homopolar bonds<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x100.png" xlink:type="simple"/></inline-formula>, and as indicated by <xref ref-type="fig" rid="fig7">Figure 7</xref>, indicates the existence of short Se chains. This shows the different linkage schemes of the GeSe<sub>4</sub> tetrahedra, where linkage through a single Se atom (corner-sharing configuration), two Se atoms (edge-sharing configuration), and through short Se chains are all present in this glass.</p><p>In <xref ref-type="fig" rid="fig8">Figure 8</xref> we show the calculated six possibilities of bond angle distributions from the RMC-generated structural model for Ge<sub>0.20</sub>Se<sub>0.80</sub> glass. Here, we calculated the angular distributions of bonds between first neighbour atoms at a maximum radial distance of 3 &#197;, which was determined from the position of the first minimum after the first PDF peak.</p><p>These bond angle distributions have been smoothed for clarity. The smoothing process did not alter their general behavior, and the associated peaks can be seen clearly in the smoothed data. Following is a description of each of these bond angle distribution functions:</p><fig id="fig7"  position="float"><label><xref ref-type="fig" rid="fig7">Figure 7</xref></label><caption><title> Partial coordination numbers for the different bond types in Ge<sub>0.20</sub>Se<sub>0.80</sub> glass as obtained from the current RMC simulation compared with those calculated from the CON and RCN models</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x101.png"/></fig><fig id="fig8"  position="float"><label><xref ref-type="fig" rid="fig8">Figure 8</xref></label><caption><title> Bond angle distribution functions (θ<sub>ijk</sub>) for Ge<sub>0</sub><sub>.</sub><sub>20</sub>Se<sub>0</sub><sub>.</sub><sub>80</sub> glass. Here j is the atom at the corner</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x102.png"/></fig><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x103.png" xlink:type="simple"/></inline-formula>:</p><p>This distribution spreads over the entire range with no well defined peaks (except a little hump at around 60˚). The general theme of this distribution is flat, which is due to the very little fraction of Ge-Ge homopolar bonds in the first PDF shell.</p><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x104.png" xlink:type="simple"/></inline-formula>:</p><p>The main peak in this distribution is broad and extends from 85˚ - 125˚ and centered at 105˚. A little hump also occurs at around 60˚. This distribution describes the connectivity between neighbouring tetrahedra. In the high-temperature phase of GeSe<sub>2</sub> glass (HT-GeSe<sub>2</sub>), edge-sharing tetrahedra (EST) show angles close to 80˚ and corner-sharing tetrahedra (CST) show angles between 96˚ - 100˚ [<xref ref-type="bibr" rid="scirp.57470-ref44">44</xref>] [<xref ref-type="bibr" rid="scirp.57470-ref45">45</xref>] . Thus, the disappearance of the peak at 80˚ in the RMC-generated model indicates that EST are very few in Ge<sub>0.20</sub>Se<sub>0.80</sub> glass, while the peak at 105˚ is due to CST. Its extension from 85˚ - 125˚ is consistent with the different linkage schemes available for this bond angle as can be seen in the right panel of <xref ref-type="fig" rid="fig9">Figure 9</xref>.</p><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x105.png" xlink:type="simple"/></inline-formula>:</p><p>This distribution has a peak at around 60˚ which is associated with three-fold rings. The little hump seen around 106˚ is related to tetrahedral angles and n-fold rings present in the glass.</p><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x106.png" xlink:type="simple"/></inline-formula>:</p><p>This distribution has two peaks, the first one occurs at around 60˚ and a second broad peak centered at around 109˚ which is consistent with the ideal value in a perfect tetrahedron (109.5˚), as shown in the right panel of <xref ref-type="fig" rid="fig9">Figure 9</xref>.</p><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x107.png" xlink:type="simple"/></inline-formula>:</p><p>This distribution is relatively similar to that of<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x108.png" xlink:type="simple"/></inline-formula>. Here, a peak is observed at around 60˚ which is due to the occasional presence of three-fold rings, while the peak centered at around 102˚ characterizes the angle at which Se chains connect to GeSe<sub>4</sub> tetrahedra.</p><p>・ <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x109.png" xlink:type="simple"/></inline-formula>:</p><p>This distribution has two main peaks, the first one is sharp and centered at around 60˚, while the second peak is broad and extends from 95˚ - 120˚, with a maximum at 110˚. As indicated in <xref ref-type="fig" rid="fig9">Figure 9</xref>, the Se-Se-Se angles in perfect tetrahedra are 60˚. This indicates that the GeSe<sub>4</sub> tetrahedra in Ge<sub>0.20</sub>Se<sub>0.80</sub> glass are ideal. This finding is consistent with the ratio of <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x110.png" xlink:type="simple"/></inline-formula> mentioned previously. In trigonal selenium [<xref ref-type="bibr" rid="scirp.57470-ref46">46</xref>] , the Se-Se-Se angle is 103˚ and the angles in small Se chains and rings range from 90˚ - 116˚. The second broad peak in this distribution indicates that Se chains and rings are formed in this glass.</p><p>Structural information about intermediate range order (IRO) is contained in the peaks beyond the nearest neighbor distances. As can be seen from <xref ref-type="fig" rid="fig6">Figure 6</xref>, the three partial atomic pair distribution functions have structural correlations that extend till about 8 &#197;. Of particular interest is the Ge-Ge partial distribution function<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x111.png" xlink:type="simple"/></inline-formula>. Peaks beyond the first shell in this function are associated with Ge-Ge correlations among the</p><fig id="fig9"  position="float"><label><xref ref-type="fig" rid="fig9">Figure 9</xref></label><caption><title> Illustration of EST (upper left panel) and CST (lower left panel). Right panel shows some angles within the GeSe<sub>4</sub> tetrahedra</title></caption><graphic mimetype="image"   position="float"  xlink:type="simple"  xlink:href="http://html.scirp.org/file/2-1030118x112.png"/></fig><p>GeSe<sub>4</sub> tetrahedra. Careful analysis of this distribution function shows a small peak at about 3.1 &#197;, which is the distance of Ge-Ge correlation when the GeSe<sub>4</sub> tetrahedra share edges. The peak at around 3.6 &#197; is due to Ge-Ge correlations in corner-sharing configuration.</p><p>The first sharp diffraction peak (FSDP) in the reduced structure function is considered as a signature of intermediate range order present in this glass [<xref ref-type="bibr" rid="scirp.57470-ref39">39</xref>] . It indicates that the bonding takes a significant directional character. It occurs at around 1.12(3) &#197;<sup>-</sup><sup>1</sup>, and so, the periodicity of the associated intermediate ranged oscillations (given by:<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x113.png" xlink:type="simple"/></inline-formula>) is about 5.61 &#197;. On the other hand, the full width at half maximum <inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x113.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x114.png" xlink:type="simple"/></inline-formula> of the FSDP was extracted through reflecting its lower part around its center, and it was found to be 0.32(2) &#197;<sup>-</sup><sup>1</sup>. This width determines the so-called coherence length (given by:<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x113.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x114.png" xlink:type="simple"/></inline-formula><inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x115.png" xlink:type="simple"/></inline-formula>), which controls the extent of the intermediate ranged oscillations in real space. This extent was found to be around 19.6 &#197;.</p></sec><sec id="s5"><title>5. Summary and Conclusion</title><p>In conclusion, we have used constrained RMC modeling to build a three-dimensional structural model of the Ge<sub>0.20</sub>Se<sub>0.80</sub> glass through simulating its experimental X-ray total atomic pair distribution function (PDF<inline-formula><inline-graphic xlink:href="http://html.scirp.org/file/2-1030118x116.png" xlink:type="simple"/></inline-formula>). The calculated correlation functions have excellent agreement with the experimental data. The obtained model indicates that the Ge<sub>0.20</sub>Se<sub>0.80</sub> network is best described by a chemically ordered network, where all atoms are coordinated according to the “8-N” rule, and the number of hetropolar bonds is maximized. The Ge atoms are four-fold coordinated to Se atoms to form GeSe<sub>4</sub> tetrahedra, and with some Se atoms are necessarily forced to form homopolar Se bonds. The GeSe<sub>4</sub> tetrahedra are linked together with different configuration schemes, including CST, EST and linkage through short Se chains. The present investigation on Ge<sub>0.20</sub>Se<sub>0.80</sub> glass provides structural insights on the network topology at both short and intermediate atomic length scales. Finally, this work shows the power of RMC simulation of experimental data to build a structural model of an amorphous material. Without such a model, much important structural information cannot be obtained.</p></sec><sec id="s6"><title>Acknowledgements</title><p>It is our pleasure to acknowledge Prof. Simon J. L. Billinge and his research group where the current experimental data set was collected. The X-ray diffraction experiment was performed at the 6ID-D beamline in the Midwest Universities Collaborative Access Team (MUCAT) sector at the Advanced Photon Source (APS). Use of the APS is supported by the US DOE, Office of Science, Office of Basic Energy Sciences, under Contract No. W-31-109-Eng-38. The MUCAT sector at the APS is supported by the US DOE, Office of Science, Office of Basic Energy Sciences, through the Ames Laboratory under Contract No. W-7405-Eng-82. We also thank Prof. Punit Boolchand from the University of Cincinnati, and his former graduate student Ping Chen for making up the studied sample.</p></sec></body><back><ref-list><title>References</title><ref id="scirp.57470-ref1"><label>1</label><mixed-citation publication-type="other" xlink:type="simple">Ross, L. and Bourgon, M. (1969) Germanium-Selenium Phase Diagram. Canadian Journal of Chemistry, 47, 2555- 2559. http://dx.doi.org/10.1139/v69-422</mixed-citation></ref><ref id="scirp.57470-ref2"><label>2</label><mixed-citation publication-type="other" xlink:type="simple">Hafiz M.M., Hammad, F.H. and Elkabany, N.A. 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