Our XRD interpretation includes: 
1. Phase determination 
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 3- Calculation of crystalline size and microstrain
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XRD is a non-destructive test method used to analyze the structure of crystalline materials. XRD analysis, by way of the study of the crystal structure, is used to identify the crystalline phases present in a material and thereby reveal The chemical composition information. JCPDS does not exist now. It has not existed since 1978. It is now known as ICDD. These particular files have never been, are not, and never will be free; it a commercial only database. There are other free databases, however. Vikas has given you a starting point.

Powder Diffraction File is a trademark of the “JCPDS (Joint Committee on Powder Diffraction Standards)-International Centre for Diffraction Data”.In 1978, the name of the organization was changed to the “International Centre for Diffraction Data” in order to highlight the global commitment of this scientific endeavor. Here, you need to purchase the database.

Some free databases are collected:

1. COD (Crystallography Open Database):

COD is an open-access database, and you can freely obtain all data contained in it. You can download cif files and then you can use mercury to plot structure models and save reflection list and xrd calculated pattern.http://www.crystallography.net/cod/search.html

2. The American Mineralogist Crystal Structure Database:

This site is an interface to a crystal structure database that includes every structure published in the American Mineralogist, The Canadian Mineralogist, European Journal of Mineralogy and Physics and Chemistry of Minerals, as well as selected datasets from other journals. The database is maintained under the care of the Mineralogical Society of America and the Mineralogical Association of Canada, and financed by the National Science Foundation.http://rruff.geo.arizona.edu/AMS/amcsd.php

3. DASH: (Cambridge Structural Database System (CSDS)):DASH is a versatile and interactive package for solving crystal structures from powder diffraction data. DASH solves structures by simulated annealing of structural models to indexed diffraction data and features a helpful wizard to guide you through the entire structure solution process.https://www.ccdc.cam.ac.uk/solutions/csd-materials/components/dash/

Some of Paid databases:

1. The International Centre for Diffraction Data® (ICDD®):

ICDD (JCPDS is now called ICDD) is a non-profit scientific organization dedicated to collecting, editing, publishing, and distributing powder diffraction data for the identification of materials. The membership of the ICDD consists of worldwide representation from academe, government, and industry. The Powder Diffraction File™ (PDF®) is the only crystallographic database that is specifically designed for material identification and characterization. It is an analysis system that is comprised of crystallographic and diffraction data. The only crystallographic database organization in the world with its Quality Management System ISO 9001:2015 certified by DEKRA.http://www.icdd.com/

2. HighScore Plus:The ideal tool for crystallographic analysis and more. Whether you are interested in improved process control, or doing research and development, understanding your materials starts very often with understanding the powder diffraction pattern. After identification of all phases present in your sample with Malvern Panalytical’s HighScore, this all-in-one software suite with the Plus option continues to support you with your analysis. Whether your focus is on quantification with or without the Rietveld method, profile fitting, or pattern treatment; HighScore Plus is the solution and helps you performing your daily analyses.https://www.malvernpanalytical.com/en/products/category/software/x-ray-diffraction-software/highscore-with-plus-option

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1- DTSA-II

DTSA-II is a multi-platform software package for quantitative x-ray microanalysis. DTSA-II was inspired by the popular Desktop Spectrum Analyzer (DTSA) package developed by Chuck Fiori, Carol Swyt-Thomas, and Bob Myklebust at NIST and NIH in the ’80’s and early ’90’s.

DTSA-II has being designed with the goal of making standards-based microanalysis more accessible for the novice microanalyst. We want to encourage standards-based analysis by making it as easy as possible to get reliable results. Many operations which had previously required user intervention under DTSA now are performed entirely by the software. Furthermore, the software attempts to guide the user step-by-step through common processes while performing quality control sanity checks. While this might not provide the flexibility that some sophisticated users may desire, we feel that this philosophy is more consistent with the way laboratories are moving towards technicians responsible for multiple techniques and away from experts in single techiques. We encourage users who desire the additional power and flexibility available in the EPQ library to learn to script using Jython or to create their own alternative user interface. EPQ is much more capable than the fraction exposed via DTSA-II.

DTSA-II is based on an entirely new code base written by Nicholas W. M. Ritchie. The codebase has been carefully divided into a shared algorithm library which forms the basis for a handful of software products and a user interface shell. DTSA-II is the user interface shell and the EPQ library is the algorithm library.

DTSA-II remains under active development. Many features – some fairly basic – remain unimplemented. Other features have not been tested as much as the developer might like. The program made available to the public via this web site represents the current best available version in the judgement of the developer. DTSA-II remains experimental software and no representations are made regarding the suitability of the product for any particular application.

Major features:

• Basic IO and Display
  • Read energy dispersive x-ray spectra in a variety of different commercial and non-commercial formats including the industry standard EMSA format
  • Display and overlay spectra with various scaling options on linear/log/sqrt axes
  • Copy/save/print the spectrum display as a bitmap/PNG file
  • Output the spectra as a GNUPlot file for publication quality output
  • Overlay labeled x-ray emission lines and x-ray absorption edges
  • Define and integrate regions-of-interest
  • View spectrum contextual information
  • Archive spectra to a searchable database
  • Sub-sampling of spectral data to simulate shorter acquisition times
  • Basic spectrum math functions
  • Background modeling or background stripping
  • Energy axis linearization
  • Spectrum smoothing
  • Peak removal (trimming)
  • Peak search / identification
• Spectrum Simulation
  • Analytical (φ(ρz)) simulations of energy dispersive x-ray spectra
    • Normal or oblique incidence angle
    • Variable beam energies, beam fluxes, materials
  • Monte carlo simulations of energy dispersive x-ray spectra
    • Spectra from bulk samples
    • Mounted or unmounted thin films
    • Cubical or spherical particles with or without a substrate
  • Simulated spectra may be manipulated as experimental spectra
  • Variety of detector options including Si(Li), SDD and microcalorimeter
• Standards-based Quantification
  • Standards-based quantification of EDS spectra
  • Filter-fit linear-least squares fitting of reference spectra
  • Quantification based on references or like-standards
  • φ(ρz) correction of the k-ratios
  • ζ-factor correction of thin-film samples
  • Results reported as HTML with estimates of uncertainty
• Reporting
  • Actions are recorded in a daily HTML activity report
  • Report may be opened in an alternative HTML viewer
• Platforms and Source Code
  • DTSA-II is based on the EPQ library – a full-featured library of electron probe quantification algorithms
  • DTSA-II only exposes a fraction of the power within the EPQ library. The remainder may be accessed via custom Java applications or via Jython scripting.
  • The EPQ library includes the full NISTMonte for Monte Carlo simulation of electron/x-ray transport
  • DTSA-II / EPQ library are available as source code
  • DTSA-II / EPQ library are written in Java SE 6 compatible source
  • DTSA-II / EPQ library can execute on any platform supporting Java SE 6 or later
  • DTSA-II / EPQ library is regularly tested on Windows XP, Ubuntu Linux & Apple OS X

Disclaimer

This software was developed at the National Institute of Standards and Technology by employees of the Federal Government in the course of their official duties. Pursuant to title 17 Section 105 of the United States Code this software is not subject to copyright protection and is in the public domain. DTSA and the EPQ library are experimental systems. NIST assumes no responsibility whatsoever for its use by other parties, and makes no guarantees, expressed or implied, about its quality, reliability, or any other characteristic. We would appreciate acknowledgement if the software is used. This software can be redistributed and/or modified freely. The author requests that any derivative works bear some notice that they are derived from it, and any modified versions bear some notice that they have been modified.

Any mention of commercial products is for information only; it does not imply recommendation or endorsement by NIST nor does it imply that the products mentioned are necessarily the best available for the purpose.

See: https://cstl.nist.gov/div837/837.02/epq/dtsa2/

2. HyperSpy

HyperSpy is an open source Python library which provides tools to facilitate the interactive data analysis of multi-dimensional datasets that can be described as multi-dimensional arrays of a given signal (e.g. a 2D array of spectra a.k.a spectrum image). HyperSpy aims at making it easy and natural to apply analytical procedures that operate on an individual signal to multi-dimensional arrays, as well as providing easy access to analytical tools that exploit the multi-dimensionality of the dataset. Its modular structure makes it easy to add features to analyze different kinds of signals.

Highlights

• Two families of named and scaled axes: signal and navigation.
• Visualization tools for multi-dimensional spectra and images.
• Easy access multi-dimensional curve fitting and blind source separation.
• Built on top of NumPy, SciPy, matplotlib and scikit-learn.
• Modular design for easy extensibility.

The development has been motivated by the data analysis needs of the electron microscopy community but it is proving useful in many other fields.

See: https://hyperspy.org/

3. AZtec

• AZtecFeature is an innovative particle analysis system specifically optimised for usability and high-speed throughput. It combines the raw speed and sensitivity of the Ultim Max Silicon Drift Detector with the superior analytical performance and ease of use of the AZtec® EDS analysis suite to create the most advanced automated particle analysis platform on the market. Gunshot Residue Analysis in the SEM with AZtecGSR is fast and accurate: it gives reproducible Gunshot Residue Analysis results to ASTM E1588 – 10e1.
• AZtecGSR combines ease of use through its guided workflow, with the ultimate accuracy using the latest Ultim Max detectors and Tru-Q® algorithms. LayerProbe is an exciting software tool for thin film analysis in the SEM. An option for the AZtec EDS microanalysis system, LayerProbe is faster, more cost-effective and higher resolution than dedicated thin film measurement tools.The most powerful EBSD software available, AZtecHKL combines speed and accuracy of results for routine analysis, with the flexibility and power required for applications that push the frontiers of EBSD.
• AZtec3D combines simultaneous EDS and EBSD data acquisition & analysis with the automated milling capabilities of a FIB-SEM.AZtecLiveOne software platform is the ideal solution for carrying out a complex task like EDS as quickly and as easily as possible. No need for substantial training or advanced knowledge of the EDS technique. Users can be trained in a matter of minutes and will have complete confidence in their results. AZtecTEM is an innovative EDS software specifically optimised for advanced TEM applications. AZtecSynergy provides a powerful solution for the simultaneous collection of EDS and EBSD data. All of the tools to collect excellent integrated data are included in one place with no complicated switching from one navigator to another.
• AZtecSteel is an automated steel inclusion analysis package developed specifically for the analysis and classification of steel inclusions using Energy Dispersive X-ray microanalysis (EDS) in a scanning electron microscope (SEM). It detects, measures and analyses the inclusions, processes the resulting data set to published standard methods, and includes functionality to plot complex ternary diagrams. AZtecLive is a revolutionary new approach to EDS analysis that enables a radical change in the way users perform sample investigation in the SEM. It combines a live electron image with live X-ray chemical imaging to give an intuitive new way of interacting with your samples. Collecting good quality data is only the beginning of any complete EBSD analysis. AZtecCrystal provides all the necessary tools to process and interrogate your EBSD data and to solve your materials problems. Seamlessly integrated with AZtecHKL or operated as a standalone program, AZtecCrystal sets the standard in EBSD data processing for experts and novices alike.
• AZtecAM is a powerful, automated, solution for the analysis of metal powders used in additive manufacturing. Based on AZtecFeature, AZtecAM optimises the particle analysis workflow to enable the rapid and accurate characterisation of metal powders. AZtecMineral is a powerful, automated, Mineral Liberation Analysis solution. It enables ore characterisation, provides vital data on metal recovery and enables process yield characterisation using multipurpose SEMs. It is also a valuable tool for the characterisation of rocks in research environments, enabling the automation of otherwise laborious optical analyses.

See: https://engineering.virginia.edu/oxford-instruments-offering-free-aztec-suite-software-electron-microscopy-analysis

4. ESPRIT Family

ESPRIT 2 unites four analytical methods under a single user interface. These include EDS for SEM and (S)TEM, WDS, Micro-XRF for SEM and EBSD. This makes it easy for the user to switch between methods with a single mouse click. Additionally, it facilitates combining different method results from the same sample area and to so gain much more information. To name only the most important, coupling of following methods is supported:

• EDS and EBSD
• EDS and WDS
• EDS and Micro-XRF for SEM

The software is designed to suit the needs of all levels of users – from beginner to expert. Novices will benefit from the assistants that help performing routine tasks without having to learn details of the measurement method. More experienced users will value the option to drill down deeper, when they need it, meaning both detailed setup of measurements as well as in-depth analysis of results and automation of tasks.

See: https://www.bruker.com/en/products-and-solutions/elemental-analyzers/eds-wds-ebsd-SEM-Micro-XRF/software-esprit-family.html

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Interaction of an electron beam with a sample target produces a variety of emissions, including x-rays. An energy-dispersive (EDS) detector is used to separate the characteristic x-rays of different elements into an energy spectrum, and EDS system software is used to analyze the energy spectrum in order to determine the abundance of specific elements. EDS can be used to find the chemical composition of materials down to a spot size of a few microns, and to create element composition maps over a much broader raster area. Together, these capabilities provide fundamental compositional information for a wide variety of materials.

How it Works – EDS

EDS systems are typically integrated into either an SEM or EPMA instrument. EDS systems include a sensitive x-ray detector, a liquid nitrogen dewar for cooling, and software to collect and analyze energy spectra. The detector is mounted in the sample chamber of the main instrument at the end of a long arm, which is itself cooled by liquid nitrogen. The most common detectors are made of Si(Li) crystals that operate at low voltages to improve sensitivity, but recent advances in detector technology make availabale so-called “silicon drift detectors” that operate at higher count rates without liquid nitrogen cooling.

An EDS detector contains a crystal that absorbs the energy of incoming x-rays by ionization, yielding free electrons in the crystal that become conductive and produce an electrical charge bias. The x-ray absorption thus converts the energy of individual x-rays into electrical voltages of proportional size; the electrical pulses correspond to the characteristic x-rays of the element.

Strengths

• When used in “spot” mode, a user can acquire a full elemental spectrum in only a few seconds. Supporting software makes it possible to readily identify peaks, which makes EDS a great survey tool to quickly identify unknown phases prior to quantitative analysis.
• EDS can be used in semi-quantitative mode to determine chemical composition by peak-height ratio relative to a standard.

Limitations

• There are energy peak overlaps among different elements, particularly those corresponding to x-rays generated by emission from different energy-level shells (K, L and M) in different elements. For example, there are close overlaps of Mn-K_α and Cr-K_β, or Ti-K_α and various L lines in Ba. Particularly at higher energies, individual peaks may correspond to several different elements; in this case, the user can apply deconvolution methods to try peak separation, or simply consider which elements make “most sense” given the known context of the sample.
• Because the wavelength-dispersive (WDS) method is more precise and capable of detecting lower elemental abundances, EDS is less commonly used for actual chemical analysis although improvements in detector resolution make EDS a reliable and precise alternative.
• EDS cannot detect the lightest elements, typically below the atomic number of Na for detectors equipped with a Be window. Polymer-based thin windows allow for detection of light elements, depending on the instrument and operating conditions.

Results

A typical EDS spectrum is portrayed as a plot of x-ray counts vs. energy (in keV). Energy peaks correspond to the various elements in the sample. Generally they are narrow and readily resolved, but many elements yield multiple peaks. For example, iron commonly shows strong K_α and K_βpeaks. Elements in low abundance will generate x-ray peaks that may not be resolvable from the background radiation.

EDS spectrum of multi-element glass (NIST K309) containing O, Al, Si, Ca, Ba and Fe (Goldstein et al., 2003). 

EDS spectrum of biotite, containing detectable Mg, Al, Si, K, Ti and Fe (from Goodge, 2003). 

References

• Severin, Kenneth P., 2004, Energy Dispersive Spectrometry of Common Rock Forming Minerals. Kluwer Academic Publishers, 225 p.–Highly recommended reference book of representative EDS spectra of the rock-forming minerals, as well as practical tips for spectral acquisition and interpretation.
• Goldstein, J. (2003) Scanning electron microscopy and x-ray microanalysis. Kluwer Adacemic/Plenum Pulbishers, 689 p.
• Reimer, L. (1998) Scanning electron microscopy : physics of image formation and microanalysis. Springer, 527 p.
• Egerton, R. F. (2005) Physical principles of electron microscopy : an introduction to TEM, SEM, and AEM. Springer, 202.
• Clarke, A. R. (2002) Microscopy techniques for materials science. CRC Press (electronic resource)

Related Links

• Petroglyph–An atlas of images using electron microscope, backscattered electron images, element maps, energy dispersive x-ray spectra, and petrographic microscope– Eric Chrisensen, Brigham Young University
• SEM/EDX webpage from Indiana University – Purdue University Fort Wayne

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X-ray is a kind of electromagnetic wave, the same as light. The wavelength of visible light is 400 to 800nm, while the wavelength of x-ray is much shorter (higher energy), at 0.001nm to 10nm, and is known to have strong penetrating power.

Fig. 1 shows the interactions between a material and X-ray, and various analysis methods that make use of these interactions. These interactions provide important clues for learning the state of a material. As a familiar example, an X-ray image for medical application is a well-known use of transmission X-ray. Here we will introduce an elemental analysis method called fluorescent X-ray spectrometry.

Fig.1 Analytical methods and its application interaction of X-ray and matter

Fluorescent X-ray Spectrometry

When irradiating X-rays onto a material, fluorescent X-ray (characteristic X-ray), which has energy (wavelength) unique to the element that composes the material will be generated. When we measure the fluorescent X-ray energy, the contained element is identified (qualitative analysis), and we can calculate the concentration (quantitative analysis) from the intensity of the fluorescent X-ray of each element. Thus, the qualitative or quantitative analyses of a material by irradiating X-rays onto an unknown material and analyzing the fluorescent X-ray that is generated, is called fluorescent X-ray spectrometry.

There are two types of fluorescent X-ray spectrometry; the wavelength dispersive type (WDXRF) using analyzing crystals, and the energy dispersive type (EDXRF) using semiconductor detectors (EDS).

Comparison between Energy Dispersive Type and Wavelength Dispersive Type Spectrometers

The characteristics of a wavelength dispersive type spectrometer (WDXRF) are high sensitivity, high accuracy, high resolution, and high reproducibility. We can expect sensitivity and accuracy at levels one order of magnitude higher than those of the energy dispersive type spectrometer (EDXRF). These characteristics are provided by a high-power X-ray tube (3 to 4 kW) and its cooling device, a goniometer which makes complicated movements and an exchange mechanism for the analyzing crystal and detector and so on. Naturally, the instruments are larger, with a complicated structure and high price. The specimen surface is required to be flat and the available analysis area is from several mm to 30mm or so. This type of device is suitable for process management where specimens with the same form are analyzed one after another.

The characteristics of the energy dispersive type spectrometer (EDXRF) are simple structure and low price, its adaptability to a variety of specimens, and its user-friendliness. The X-ray bulb is compact (several tens W) and air-cooled, and since the EDS (semiconductor detector) itself performs the analysis, a complicated spectroscopy section is not necessary.

The roughness or shape of specimen does not matter, so analysis of large specimens or micro areas is possible. Each characteristic is shown in Fig. 2. The images are the large instrument for WDXRF, and the compact simple instrument for EDXRF.

Wavelength Dispersive Type (WDXRF) Advantages: High Sensitivity, High Resolution High Accuracy, High Reproducibility Disadvantages: Complicated and large-sized, high price Specimen is limited to flat platesEnergy Dispersive Type (EDXRF) Advantages: Simple Operation, compact, low price Flexibility in specimen shape Disadvantages: Low resolution (overlapped peaks) Cooling mechanism requiring liquid nitrogen or the like

Fig.2 Comparison between Wavelength Dispersive Type (WDXRF) and Energy Dispersive Type (EDXRF)

Sampling of Solid/Powder/Liquid Samples

One of the characteristics of EDXRF is the ease of use. Sampling of solid, powder, and liquid samples is explained below.

Sampling of Solid Sample

Analysis of a solid sample is possible by simply placing the sample at the X-ray illumination position.

In case of small sample, use of a dedicated cell will make it easier to set the sample. Fig. 3 shows a simplified illustration of the solid sample sampling method.

Fig.3 Sampling of Solid Sample

Sampling of Powder Sample (rock, soil, incinerated ash, etc)

Powder samples are typically analyzed by producing a pellet using a compression device. As a simplified method, analysis is possible on the powder placed into a specially-designed cell. Fig. 4 shows a simplified illustration of the powder sample sampling method.

Fig.4 Sampling of Powder Sample

Sampling of Liquid Sample

For liquid samples, a dedicated cell is used. Fill a dedicated cell with the liquid and analyze. In addition, there is another method where you can drop liquid onto a filter, dry it, and then analyze it. Fig. 5 shows a simplified illustration of liquid sample sampling methods.

Fig.5 Sampling of Liquid Sample

FP Quantitative Method / Film Thickness Analysis of Thin Film Sample

FP (fundamental parameter) quantitative method

The EDXRF instrument employs a theoretical calculation method called the FP quantitative method, allowing quantitative analysis of an unknown sample without the need for a standard sample.
The FP quantitative method assumes that the sample is uniform, sufficiently large and thick, and that all elements (100% in total) are quantified. Naturally, a sample must satisfy these assumptions, so attention is needed.The flow chart of FP quantitative method is shown in Fig. 6.

Fig.6 The flow chart of FP quantitative method

Flow Chart Explanation

1. First, measure the unknown sample and obtain the measurement intensity.
2. Assume the initial concentration of the sample and obtain a calculated intensity using the FP method.
3. Compare the measurement intensity and the calculated intensity.
4. Change the assumed concentration so that the measurement intensity and the calculated intensity match.
5. Obtain a new calculated intensity with the new assumed concentration using the FP method.
6. Repeat steps 3 to 5.
7. The assumed concentration that gives a calculated concentration that matches the measurement concentration is the analysis result.

Film Thickness Analysis of Thin Film Sample

In the case of a thin film sample, there is a correlation between the x-ray intensity of the elements composing the film and the film thickness. Therefore, by irradiating X-rays onto the surface of a thin film and measuring the X-ray intensity of the elements composing the film, the film thickness can be analyzed without destroying it.

A Single layer film can be analyzed using a calibration curve, but with the calibration curve method, a standard sample must be prepared for each kind of film. When the thin film FP quantitative method is used, it is not only possible to analyze single layer films, but also to analyze the thickness and composition of each layer in a multi-layer thin film, up to 5 layers , without a standard sample, which is very convenient. Fig. 7 shows a diagram of the thin film FP method, Fig. 8 shows a measurement example of Au/Ni/Cu film.

Thin Film FP (fundamental parameter) method

• Simultaneous non-destructive analysis of thickness and composition of thin film
• Up to 5 layers, and up to 20 elements for each layer
• Film thickness of about 10nm to 10μm (differs depending on element)
• Standard sample is not necessary (theoretical calculation)
• Information of layering order, elements, and density of the film is needed.

Fig.7 Schematic diagram of a thin film FP method

Fig.8 Measurement of the film Au / Ni / Cu thin film FP method

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What is EDS?

Energy-dispersive X-ray spectroscopy (also known as EDS, EDX, or EDXA) is a powerful technique that enables the user to analyze the elemental composition of a desired sample. The major operating principle that allows EDS to function is the capacity of high energy electromagnetic radiation (X-rays) to eject ‘core’ electrons (electrons that are not in the outermost shell) from an atom. This principle is known as Moseley’s Law, which determined that there was a direct correlation between the frequency of light released and the atomic number of the atom.

Removing these electrons from the system will leave behind a hole that a higher energy electron can fill in, and it will release energy as it relaxes. The energy released during this relaxation process is unique to each element on the periodic table, and as such bombarding a sample with X-rays can be used to identify what elements are present, as well as what proportion they are present in.

Shown below is an example of how EDS works. The letters K, L, and M refer to the n value that electrons in that shell have (K electrons, closest to the nucleus, are n=1 electrons), while α and β indicate the size of the transition. The relaxation from M to L or L to K are therefore described as Lα or Kα, while going from M to K would be a Kβ transition. The means that are used for describing these processes as a whole are known as Siegbahn notation.

How is data collected?

EDS functions with a series of three major parts: an emitter, a collector, and an analyzer. These parts are additionally typically equipped on an electron microscope such as SEM or TEM. The combination of these three pieces enables analysis of both how many X-rays are released, as well as what their energy is (in comparison to the energy of the initial X-rays that were emitted).

The EDS data is presented as a graph with KeV on the x-axis and peak intensity on the y-axis. The peak location on the x-axis are converted into the atoms that the energy changes represent by a computer program.

Figure. EDS chart from a research group that was analyzing the composition of shrimp and the associated bacteria that associate with these minerals. The EDS helped support the researcher’s case that the endosymbiotic bacteria living on these shrimp actually do influence the iron oxide composition in these minerals. This is evident by the peaks at 0.5 and 6.5 KeV.² 

What are some drawbacks of EDS?

Although EDS is an extremely useful technique, there are a number of difficulties involved with the process which hinder its utility. First, EDS is generally not a particularly sensitive technique. If the concentration of an element in the sample is too low, the amount of energy given off by X-rays after hitting the sample will be insufficient to adequately measure its proportion. Second, EDS generally does not work for elements with a low atomic number. Hydrogen and helium both only have an n=1 shell, meaning there aren’t core electrons to be removed that can allow for X-ray emission. Lithium and beryllium, meanwhile, have sufficiently low atomic numbers that the energy of X-rays given off by Li or Be samples is insufficient for measurement, and often times they cannot be tested as a result.

One additional difficulty associated with the technique is the thickness of the sample. Sample thickness can bring energy levels closer together, thus making electrons easier to move to outer energy levels, which can in turn cause deviation in the results. Another error source is overlapping emitted x-rays, which can alter the KeV readings. Additionally, X-rays are not particularly effective at penetrating beyond several nanometers in samples, which means that only surface layers can be efficiently measured by the technique. As such, if there is a discrepancy between the outer and inner material layers, it will not necessarily appear in EDS.

Work Cited

1. https://en.wikipedia.org/wiki/Energy-dispersive_X-ray_spectroscopy
2. https://cfamm.ucr.edu/documents/eds-intro.pdf
3. L. Corbari, M.-A. Cambon-Bonavita, G. J. Long, F. Grandjean, M. Zbinden, F. Gaill, and P. Compere “Iron oxide deposits associated with the ectosymbiotic bacteria in the hydrothermal vent shrimp Rimicaris exoculata” Biogeosciences 2008, 5, 1295–1310.

Our XRD interpretation includes:
1. Phase determination
2. Determination of diffracted planes
3- Calculation of crystalline size and microstrain
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1. Profex

What is Profex?

Profex is a graphical user interface for Rietveld refinement of powder X-ray diffraction data with the program BGMN. It provides a large number of convenience features and facilitates the use of the BGMN Rietveld backend in many ways.

• Various options and output formats to create publication-quality graphs
• Main window
• Display hkl line positions from the internal reference structure database
• Powerful text editors support syntax highlighting and various convenience features
• A context help provides descriptions of all refinement parameters
• After the refinement, results are summarized (bottom right)
• Show the refined chemical composition (bottom right)
• A powerful search-match module for phase identification
• CIF / XML import editor to convert CIF or ICDD XML structure files to the native STR format
• Compute electron density maps (Fobs, Fcalc, or difference fourier maps)
• Graphical instrument editor to edit the fundamental parameters
• Generic non-linear curve fitting module
• Various options and output formats to create publication-quality graphs
• Main window

Key features

• Support for a variety of raw data formats, including all major instrument manufacturers (Bruker / Siemens, PANalytical / Philips, Rigaku, Seifert / GE, and generic text formats)
• Export of diffraction patterns to various text formats (ASCII, Gnuplot scripts, Fityk scripts), pixel graphics (PNG), and vector graphics (SVG)
• Batch conversion of raw data scans
• Automatic control file creation and output file name management
• Conversion of CIF and ICDD PDF-4+ XML structure files to BGMN structure files
• Export of refined crystal structures to CIF and Castep CELL format
• Internal database for crystal structure files, instrument configuration files, and predefined refinement presets
• Computation of chemical composition from refined crystal structures
• Batch refinement
• Export of refinement results to spreadsheet files (CSV format)
• Context help for BGMN variables
• Syntax highlighting
• Enhanced text editors for structure and control file management and editing
• Generic support for FullProf.2k as an alternative Rietveld backend to BGMN
• And many more…

Profex runs on Windows, Linux, and Mac OS X operating systems and is available as free software licensed under the GNU General Public License (GPL) version 2 or any later version.

Video tutorials

August 12, 2020. Check out our brand new YouTube channel Profex Tutorials. We will periodically publish new tutorials for selected topics. The first episode explains installation and setup of Profex on three different platforms:https://www.youtube.com/embed/vaWBjTNWG7U?feature=oembed

Profex 4.2 released

August 05, 2020. Profex, our software for Rietveld refinement of powder X-ray diffraction data (XRD), continues to gain popularity and is now established worldwide in the material and earth sciences communities. With the new version 4.2, it has received some long-awaited features that make it easier to use for new and experienced users. As always, Profex remains available as open-source software and is free for academic and commercial use. Visit the What’s new page for an overview of the new features, and download the latest version for Windows, Mac OS or Linux from the Download page.

Feature highlights in version 4.2

Import of CIF structure files has further been improved. Most CIF files require no user input anymore. Wyckoff symbols are determined automatically.

Creating instrument configurations has always been a major obstacle for new users. A brand new graphical instrument editor is easier and more attractive to use. It guides users through the process of creating configuration files for their own devices.

The search-match module for phase identification was introduced with Profex 4.0. With version 4.2, it supports chemical restrictions, which gives more control over the search process and improves the match rate and processing speed

See https://www.profex-xrd.org/

2. OpenXRD

OpenXRD is a program for the analysis of X-ray diffraction data.It will comprise scan treatment (background substraction, peak hunting) as well as mineral identification. OpenXRD will read almost any available data format. OpenXRD is free software and published under the GPL.

We will try to establish a free file with mineral data, fed by scientists and given back to scientists. OpenXRD will be available for Linux/Unix, Windows, and, perhaps Macintosh computers.

Released under GNU General Public License version 2.0 (GPLv2) 

OpenXRD is a free software application from the Other subcategory, part of the Graphic Apps category. The app is currently available in English and it was last updated on 2001-12-27. The program can be installed on All 32-bit MS Windows (95/98/NT/2000/XP) All POSIX (Linux/BSD/UNIX-like OSes) OS X Linux.
OpenXRD (version ) is available for download from our website. Just click the green Download button above to start. Until now the program was downloaded 13911 times. We already checked that the download link to be safe, however for your own protection we recommend that you scan the downloaded software with your antivirus.

See: https://openxrd.soft112.com/

3. FullProf

What is FullProf?

The FullProf program has been mainly developed for Rietveld analysis (structure profile refinement) of neutron (constant wavelength, time of flight, nuclear and magnetic scattering) or X-ray powder diffraction data collected at constant or variable step in scattering angle 2theta. The program can be also used as a Profile Matching (or pattern decomposition using Le Bail method) tool, without the knowledge of the structure. Single crystal refinement can also be performed alone or in combination with powder data. Time of flight (TOF) neutron data analysis is also available. Energy dispersive X-ray data can also be treated but only for profile matching.

Features:

• X-ray diffraction data: laboratory and synchrotron sources
• X-ray diffraction data: laboratory and synchrotron sources
• One or two wavelengths (eventually with different profile parameters)
• Scattering variables: 2theta (in degrees), TOF (in microseconds), energy (in KeV)
• Background: fixed, refinable points or polynomial coefficients, Fourier filtering
• Choice of peak shape for each phase: Gaussian, Lorentzian, modified Lorentzian, pseudo-Voigt, Pearson-VII, Thompson-Cox-Hastings (TCH) pseudo-Voigt, numerical, split pseudo-Voigt, convolution of a double exponential with a TCH pseudo-Voigt for TOF
• Multi-phase (up to 16 phases)
• Preferred orientation: two functions available
• Absorption correction for different geometries. Micro-absorption for Bragg-Brentano set-up
• Choice between three weighting scheme: standard least-square, maximum likelihood and unit weights
• Choice between automatic generation of hkl and/or symmetry operators and file given by user
• Magnetic structure refinement (crystallographic and spherical representation of the magnetic moment). Two methods: describing the magnetic structure in the magnetic unit cell or making use of the propagation vectors using the crystallographic unit cell. This second method is necessary for incommensurate magnetic structures
• Automatic generation of reflections for an incommensurate structure with up to 24 propagation vectors. Refinement of propagation vectors components in reciprocal lattice units
• hkl-dependence of FWHM for strain and size effects
• hkl-dependence of the position shifts of Bragg reflections for special kinds of defects
• Profile Matching: the full profile can be adjusted without prior knowledge of the structure (needs only good starting cell parameters and profile parameters)
• Quantitative analysis withour need of structure factor calculations
• Chemical (distances and angles) and magnetic (magnetic moments) slack constraints. They can be generated automatically by the program
• The instrumental resolution function (Voigt function) may be supplied in a file. A microstructural analysis is then performed
• Form factor refinement of complex objects (plastic crystals)
• Structural or magnetic model could be supplied by an external subroutine for special purposes (rigid bodies TLS is the default, polymers, small angle scattering of amphifilic crystals, description of incommensurate structure in real direct space, etc)
• Single crystal data or integrated intensities can be used as observations (alone or in combination with a powder profile)
• Neutron (or X-ray) powder patterns can be mixed with integrated intensities of X-ray (or neutron) for single crystal or powder data
• Full multi-pattern capabilities. The user may mix several powder diffraction patterns (eventually heterogeneous: X-rays, TOF neutrons, etc.) with total control of the weighting scheme
• Montecarlo/Simulated Annealing algorithms have been introduced to search the starting parameters of a structural problem using integrated intensity data

See: https://www.ill.eu/sites/fullprof/php/programs.html

4. PowDLL

PowDLL is a .NET dynamic link library used for the interconversion procedure between variable formats of Powder X-Ray files. The DLL is capable of handling the most common file formats (binary and ASCII). The library can be used as a reusable component with any .NET language or as a standalone utility.

See: http://users.uoi.gr/nkourkou/powdll/

5. Software Ic

The software packages currently developed at IC are:

• Sir: a widely used package for the solution and refinement of macro and small  molecules using either X-ray or electron diffraction single-crystal data.
• EXPO2014/EXPO2013: an integrated package for the indexation of a powder diffraction pattern, the extraction of integrated intensities, the space group determination, the crystal structure solution viaDirect Methods and/or by a direct-space approach, and the structure refinement by the Rietveld technique.
• QualX2.0/QualX: a computer program for phase identification using powder diffraction data.
• Quanto: a Rietveld program for quantitative phase analysis of polycrystalline mixtures from powder diffraction data.
• SunBIM: a suite of programs for the supra- and sub-molecular X-ray imaging of nano and bio materials with SAXS, WAXS, GISAXS and GIWAXS techniques
• RootProf: An interactive, general purpose tool for processing unidimensional profiles with specific applications to X-ray diffraction measurements
• OChemdb: an on-line portal, using an appropriately designed database of already solved crystal structures, for searching and analysing crystal-chemical information of organic, metal-organic and inorganic structures, and providing statistics on desired bond distances, bond angles, torsion angles, and space groups.

The software is free for academic and non-profit research institutions, while it requires the payment of a license fee to commercial users.

To download the software packages, academic and no-profit users must first register to the web site, choosing the software packages of their interest and accepting all the terms and conditions of the on-line Academic License Agreement. After completing the registration, users will receive a confirmation e-mail and will be allowed tologin to download the selected packages.

Registered users can download freely the previous versions of our packages (such as Sir97, Sir2004, EXPO2004, EXPO2009, EXPO2013 and QualX) for non-commercial use from the Old Software section of the web site.

Commercial users must fill the Order Form and send it by email or fax to our office, together with a signed copy of the Commercial License Agreement.

The license covers the use of all the requested programs under all the supported operating systems for an unlimited time on an unlimited number of computers.

See: http://www.ba.ic.cnr.it/softwareic/

X-ray diffraction, abbreviated as XRD, is an old and well-known technique for studying the structure and properties of crystals. The basis of the XRD method is single-color X-ray diffraction by atoms of a substance. Diffraction generally occurs when light strikes an obstacle. When it hits an obstacle, the light beam either bends and propagates or passes through tiny pores on the obstacle. The diffraction phenomenon is visible for all electromagnetic rays, including X-rays. Interference between the X-ray electric vector and the electrons of the material through which the beam passes can be constructive or destructive. In constructive interference, the X-ray diffraction pattern is characterized by a pattern of atomic arrangement in a regular crystal structure. In fact, when an X-ray is shone on a crystal, its diffraction occurs according to the structural characteristic pattern of the crystal.

Bragg’s Law

Due to the regular structure in a crystal, it can be assumed to be regular plates with specified intervals. Diffraction occurs because the distance between the regular layers of a crystal is close to the X-ray wavelength. The X-ray strikes the angle θ with the surface, causing part of the initial beam to propagate at the same angle θ and the other part to enter the inner plates of the crystal. This process is repeated for many pages of a crystal. The distance traveled by X-rays in contact with surface atoms is less than the distance traveled in contact with the inner layer of the crystal. The distance traveled depends on the distance between the two layers and the angle of X-ray radiation.

X-ray diffraction – XRD – analium
Figure 1 X-ray collision and its diffraction method in XRD method

Figure 1 shows that the difference in path traveled between the first and second layers is equal to:

BG = BC = dSinθ (1)

Constructive diffraction occurs when the difference in the length of the X-ray path is an exact multiple of the wavelength. Therefore, for the total distance traveled, it is equal to:

(2) nλ = 2dSinθ

This equation is known as the Bragg relation. In this relation λ the wavelength of the source d is the distance between the crystal plates and θ is the angle of incidence and n is an integer. Note that based on this equation, the X-ray will only be reflected at specific angles obtained from the rearrangement of Equation 1:

   (3) Sinθ = nλ / 2d

An XRD spectrum is obtained by plotting the intensity in θ. By changing θ and knowing the wavelength of the source λ, d is obtained at any moment.

XRD device
Similar to many XRD component analyzers, they include a source, a wavelength selector, a sample location, a detector, and a signal converter. Figure 2 shows an overview of an X-ray diffraction device (XRD).

X-ray diffraction device (XRD) – analium
Figure 2 Overview of an X-ray diffraction device (XRD)

X-ray tubes with tungsten filament are commonly used as sources. Source intensity can be adjusted by adjusting the current flowing through it. The beam wavelength can also be controlled by applying applied voltage control.

A monochromator or filter is used to create a monochromatic beam. A variety of scintillation and semiconductor gas-filled detectors are used in XRD devices.

Preparation of XRD samples
The sample must be well ground to obtain a homogeneous powder from the crystalline sample. In this case, it is possible to place a large number of crystalline particles in the desired direction and in accordance with the Bragg equation. The samples are mixed with a suitable adhesive and then molded.

Crystallization is a very important step in the preparation of XRD samples and requires special skills and expertise.

In powder X-ray diffraction, the diffraction pattern is obtained from the powder form of the sample. XRD powder is usually lighter and simpler than crystalline diffraction. Because in powder form, there is no need to prepare single crystal. In the powder method, the mass pattern (bulk) of the sample is also obtained.

XRD Analysis Tips
The sample must have a crystalline structure.
Has little accuracy in quantifying phases (phases with values ​​less than 5% are not detected).
In qualitative analysis, the element does not perform well.
The method is fast and powerful and with convenient access.
XRD Application Background
Determining the crystal structure and accurate measurement of lattice parameters
Determining fuzzy diagrams
Chemical identification and analysis
Determining the quality and direction of plates in single crystals

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To satisfy this curiosity, many inventions have been devised. One of them is the optical microscope. The human eye can distinguish objects down to about 0.2 mm. Optical microscopes reveal small objects, which would be otherwise invisible to the human eye, by magnifying them with the help of a combination of glass lenses. If we raise the amplification rate (magnification) of an optical microscope higher and higher, can we see an atom?

Electron microscopes enable clear observation of micro-structures, which is not possible with optical microscopes. Moreover, they also make it possible to analyze substance structures and obtain atomic level information by using an electron beam. The electron microscope is an epoch-making invention used throughout the world to investigate an atomic world that we could hardly imagine.

The difference between Electron Beam and Light

fig1. Ripples caused by the difference in the magnitude of the wave

As explained above, the ability to distinguish a small structure, that is resolution, largely depends on the wavelength of the “wave” used to illuminate the specimen.

The nature of this “wave” may be easily understood by comparing it to the wave pattern arising when a small stone is thrown into a lake. Assume the waves on the water surface come into contact with a rock protruding above the surface. If the rock is larger than the length between the crests of the waves (wavelength), then the wave pattern does not continue behind the rock (Fig,1). This creates a shadow. If the rock is smaller than the wavelength, however, the wave pattern will not be interrupted behind the rock and there is no shadow. In this case, the existence of the rock cannot be detected.

Whereas the wavelength of visible light is 400 to 800 nm (1 nanometer is one 100,000th of 0.1mm), the wavelength of the electron beam, which is used as a light source in the electron microscope, varies depending on the accelerating voltage. The accelerating voltages commonly used are 100 to 200 kV (corresponding to wavelengths of 0.0037nm to 0.0025nm).

This wavelength is far shorter than that of light, and sufficient to distinguish the arrangements of atoms (several nanometers). For the optical microscope the combination of the lens is varied to alter the magnification. In contrast, for the electron microscope, the intensity of the electric current passed to the electromagnets is varied to change the intensity of the magnetic field. This corresponds to the changing the thickness of a convex lens. In fact, by manipulating the electric current, the magnification can be freely controlled.

Another characteristic “electron diffraction”

TEMs employ a high voltage electron beam in order to create an image. An electron gun at the top of a TEM emits electrons that travel through the microscope’s vacuum tube. Rather than having a glass lens focusing the light (as in the case of light microscopes), the TEM employs an electromagnetic lens which focuses the electrons into a very fine beam. This beam then passes through the specimen, which is very thin, and the electrons either scatter or hit a fluorescent screen at the bottom of the microscope. An image of the specimen with its assorted parts shown in different shades according to its density appears on the screen. This image can be then studied directly within the TEM or photographed.  Figure 1 shows a diagram of a TEM and its basic parts. 

Fig. 1 Simplified diagram of a transmission electron microscope.  Drawing by Graham Colm, courtesy of Wikimedia Commons.

What Are the Differences Between a TEM and a Light Microscope?

Although TEMs and light microscopes operate on the same basic principles, there are several differences between the two. The main difference is that TEMs use electrons rather than light in order to magnify images. The power of the light microscope is limited by the wavelength of light and can magnify something up to 2,000 times. Electron microscopes, on the other hand, can produce much more highly magnified images because the beam of electrons has a smaller wavelength which creates images of higher resolution. (Resolution is the degree of sharpness of an image.) Figure 2 compares the magnification of a light microscope to that of a TEM. 

Fig. 2 [left] Cotton stem; area in the circle is the phloem tissue. Light microscope x250. Photo by K. Esau.  [right] Enlarged image of cotton phloem tissue showing a sieve element (top cell) and a companion cell (bottom cell), TEM x8,000. Photo by J. Thorsch.

How Are TEM Specimens Prepared?

Specimens must be very thin so that electrons are able to pass through the tissue. This may be done by cutting very thin slices of a specimen’s tissue using an ultramicrotome.  The tissue must first be put in a chemical solution to preserve the cell structure.  The tissue must also be completely dehydrated (all water removed). 

                                 Fig. 3 Ultramicrotome.  Photo by J. Thorsch.                                                             Fig. 4 Microtome grid.  Image by Laurie Hannah

Once preserved and dehydrated, tissue samples are placed in hard, clean plastic.  The plastic supports the tissue while it is being thinly cut with the ultramicrotome (Fig. 3).

After sections are cut and mounted on grids, (tiny circular disks with openings,) a solution of lead is used to stain the tissue (Fig. 4).  The lead provides contrast to the tissue by staining certain cell parts.  When placed in the electron microscope, the electrons are scattered by the lead.  They do not penetrate the tissue or hit the fluorescent screen, leaving those areas dark. 

Esau’s Work With the TEM

Esau started using the TEM in her research in the early 1960s.  When she moved to UC Santa Barbara in 1963, the campus purchased a Siemens electron microscope for her. She then received a grant from the National Science Foundation in 1969 for another new microscope which she used for the remainder of her career in Santa Barbara. The TEM significantly improved her understanding of the relationship between plants and viruses. Electron microscopy also aided in clarifying the functioning of sieve elements, the food conducting cells in plants. Without the TEM, much of this research would not have been possible. 

Our XRD interpretation includes:
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2. Determination of diffracted planes
3- Calculation of crystalline size and microstrain
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X-ray diffraction (XRD) is a technique used in materials science for determining the atomic and molecular structure of a material. This is done by irradiating a sample of the material with incident X-rays and then measuring the intensities and scattering angles of the X-rays that are scattered by the material. The intensity of the scattered X-rays are plotted as a function of the scattering angle, and the structure of the material is determined from the analysis of the location, in angle, and the intensities of scattered intensity peaks. Beyond being able to measure the average positions of the atoms in the crystal, information on how the actual structure deviates from the ideal one, resulting for example from internal stress or from defects, can be determined.

The diffraction of the X-rays, that is central to the XRD method, is a subset of the general X-ray scattering phenomena. XRD, which is generally used to mean can wide-angle X-ray diffraction (WAXD), falls under several methods that use the elastically scattered X-ray waves. Other elastic scattering based X-ray techniques include small angle X-ray scattering (SAXS), where the X-rays are incident on the sample over the small angular range of 0.1-10⁰typically). SAXS measures structural correlations of the scale of several nanometers or larger (such as crystal superstructures), and X-ray reflectivity that measures the thickness, roughness, and density of thin films. WAXD covers an angular range beyond 10⁰.

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JoVE Science Education Database. Materials Engineering. X-ray Diffraction. JoVE, Cambridge, MA, (2020).

PRINCIPLES

Relationship between diffracted peak positions and crystal structure:

When light waves of sufficiently small wavelength are incident upon a crystal lattice, they diffract from the lattice points. At certain angles of incidence, the diffracted parallel waves constructively interfere and create detectable peaks in intensity. W.H. Bragg identified the relationship illustrated in Figure 1 and derived a corresponding equation:

nλ = 2d_hkl sin θ [1]

Here λ is the wavelength of the X-rays used, d_hkl is the spacing between a particular set of planes with (hkl) Miller indices*, and θ is the angle of incidence at which a diffraction peak is measured. Finally, n is an integer that represents the ‘harmonic order’ of the diffraction. At n=1, for example, we have the first harmonic, meaning that the path of X-rays diffracted through the crystal (equivalent to 2d_hkl sin ) is exactly 1λ, while at n=2, the diffracted path is 2λ. We can typically assume n=1, and, in general, n=1 for θ < sin^-1(2λ/d_h’k’l’), where h’k’l’ are the Miller indices of the planes that show the first peak (at the lowest 2θ value) in a diffraction experiment. Miller indices are a set of three integers that constitute a notation system for identifying directions and planes within crystals. For directions, the [h k l]Miller indices represent the normalized difference in the respective x, y and z coordinates (in a Cartesian coordinate system) of two points along the direction. For planes, the Miller indices (h k l) of a plane are simply the h k l values of the direction perpendicular to the plane.

In a typical XRD experiment in reflection mode, the X-ray source is fixed in position and the sample is rotated with respect to the X-ray beam over θ. A detector picks up the diffracted beam and has to keep up with the sample rotation by rotating at twice the rate (i.e. for a given sample angle of θ, the detector angle is 2θ). The geometry of the experiment is schematically shown in Figure 1.

Figure 1: Illustration of Bragg’s Law.

When a peak in intensity is observed, equation 1 is necessarily satisfied. Consequently, we can calculate d-spacings based on the angles at which these peaks are observed. By calculating the d-spacings of multiple peaks, the crystal class and the crystal structure parameters material sample can be identified using a database such as the Hanawalt Search Manual or database libraries available with the XRD software being used.

We will be assuming that the sample being investigated is not a single crystal. If the sample were a single crystal with a particular (h*k*l*) plane parallel to the sample surface, it would need to be rotated until the Bragg condition for the (h*k*l*) is satisfied in order to see a peak in diffracted intensity (for n=1) with potentially higher harmonic (h*k*l*)peaks (e.g. for n=2) also detectable at higher angles. At all other angles there would be no peaks in a single crystal sample. Instead, let’s assume that the sample is either polycrystalline or that it is a powder, with a statistically significant number of crystalline grains or powder particles illuminated by the incident X-ray beam. Under this assumption, the sample consists of randomly oriented grains, with a similar statistical probability for all possible lattice planes to diffract.

The relationships between the d_hkl and the unit cell parameters are shown below in Equations 2-7 for the 7 crystal classes, cubic, tetragonal, hexagonal, rhombohedral, orthorhombic, monoclinic and triclinic. The unit cell parameters consist of lengths of(a,b,c) and the angles between (α, β, γ) the edges of the unit cells for the 7 crystal classes (Figure 1x shows the example of one of the crystal classes: the tetragonal structure where a=b≠c, and α=β=γ=90⁰). Using multiple diffracted peak positions (i.e. several distinct d_hkl values), the values of the unit cell parameters can be solved uniquely.

Figure 2: The tetragonal structure as one of the seven crystal classes.

Cubic (a = b = c; α = β = γ = 90⁰):

  [2]

Tetragonal (a = b ≠ c; α = β = γ = 90⁰):

  [3]

Hexagonal (a = b ≠ c; α = β = 90⁰; γ = 120⁰):

  [4]

Orthorhombic (a ≠ b ≠ c; α = β = γ = 90⁰):

  [5]

Rhombohedral (a = b ≠ c; α = β = γ = 90⁰):

  [6]

Monoclinic (a ≠ b ≠ c; α = γ = 90⁰≠ β):

  [7]

Triclinic (a ≠ b ≠ c; α ≠ β ≠ γ ≠ 90⁰): 

        [8] 

Relationship between diffracted peak intensities and crystal structure:

Next we examine the factors that contribute to the intensity in an XRD pattern. The factors can be broken down as 1) the contribution to scattering that results directly from the unique structural aspects of the material (the specific types and locations of scattering atoms in the structure) and 2) those that are not specific to the material. In the former, there are two factors: the ‘absorption factor’ and the ‘structure factor’. The absorption factor primarily depends on the ability of the material to absorb X-rays on their way in and out. This factor does not have a θ dependence as long as the samples are not thin (the sample should be > 3 times thicker than the attenuation length of the X-rays). In other words, the contribution by the absorption factor to the intensity of different peaks is constant. The ‘structure factor’ directly affects the intensity of specific peaks as a direct result of the structure. The remaining factors, the ‘multiplicity’, which accounts for all the planes that belong to the same family because they are symmetrically related, and the ‘Lorentz-Polarization’ factor, which comes from the geometry of the XRD experiment, also affect the relative intensity of the peaks but they are not specific to a material and can easily be accounted for with analytical expressions (i.e. XRD analysis software can remove them with analytical functions).

Figure 3: Three diffraction ray paths, of which rays 11′ and 22′ satisfy the Bragg condition, while ray 33′ results from scattering by an atom (red circle) at an arbitrary position.

As the only factor that carries the unique structural contribution of a material to the relative intensities of XRD peaks, the structure factor is very important and requires a closer look. In Figure 2, let us assume that the 1^st order Bragg diffraction condition (remember, that this corresponds to n=1) is satisfied between ray_11′ and ray_22′ which are scattered on two atomic planes in the h00 direction (using the Miller indices notation described earlier) separated by a distance d. Under this condition, the difference in path length between ray_11′ and ray_22′ is δ_{(22′-11′)} = SA + AR = λ. The phase shift between the diffracted rays 1 and 2 is, therefore, Φ_22′-11′ = (δ_{(22′-11′)}/λ) 2π = 2π (assuming a cubic symmetry and, therefore, d = a/h in the h00 direction].

With a few steps in analytical geometry, it can be shown that the phase shift, Φ_{(33′-11′)}, with ray 3 diffracted by an arbitrary plane of atoms that are spaced an arbitrary distance x, is given by: Φ_{(33′-11′)} = 2πhu, where u=x/a (a is the unit cell parameter in the (h00) direction.) Taking the two other orthogonal directions, (0k0) and (00l), and v=y/a and w=z/a as fractional coordinates in the y- and z-directions, the expression for the phase shift extends to Φ = 2π(hu+kv+lw). Now, the X-ray wave scattered by the j-th atom in a unit cell will have a scattering amplitude of f_j and a phase of Φ_j, such that the function describing it is . The structure factor we seek, therefore, is the sum of all the scattering functions due to all the unique atoms in a unit cell. This structure factor, F, is given as:

  [9]

and the intensity factor contributed by the structure factor is I = F².

Based on the positions (u,v,w) of atoms on particular planes (h,k,l), there is the possibility of interference between scattered waves that is constructive, destructive, or in-between, and this interference directly affects the amplitude of the XRD peaks representing the (hkl) planes.

Now, a plot of intensity, I, versus 2θ is what is measured in an XRD experiment. The determination of the of crystal type and the associated unit cell parameters (a, b, c, α, β, and γ) can be arrived at analytically by observing systematic presence/absence of peaks, using the equations 2-9, comparing values against databases, using deduction and a process of elimination. Nowadays, this is process is fairly automated by a variety of software linked to crystal structure databases.

PROCEDURE

The following procedure applies to a specific XRD instrument and its associated software, and there may be some variations when other instruments are used.

1. We will examine a Ni powder sample on a Panalytical Alpha-1 XRD instrument.
2. First, choose the mask to fix the beam size according to your sample diameter. The beam must not have a footprint larger than the sample at the smallest θ value (typically ~ 7⁰-10⁰). For a sample of width ε, the beam size should be < ε sinθ.
3. Load the sample in the sample spinner stage and lock the sample into position. The sample spinner helps to spatially randomize the exposure of the sample to the X-ray source.
4. Choose the angle range for your XRD scan. For example 15-90 degrees is a typical range.
5. Choose a step size, i.e. the increment in 2θ, and integration (counting) time. Generally a 0.05 degree step size and 4 seconds integration is the default for a wide angle scan.
6. Once all the peak positions are determined through this initial scan, subsequent scans can focus on a narrower scan range around specific peaks using a smaller step size in angle if higher resolution data from those peaks are desired.

RESULTS

In Figure 4 we see the XRD peaks for the Ni powder sample. Note that the peaks that are observed (e.g. {111}, {200}) are for those that have either all even or all odd combinations of h, k, and l. Ni is face-centered cubic (FCC), and in all FCC structures, the peaks corresponding to {hkl} planes where h, k, and l are mixtures of even and odd integers, are absent due to the destructive interference of the scattered X-rays. Peaks corresponding to planes, such as {210} and {211} are missing. This phenomenon is called the systematic presence and absence rules, and they provide an analytical tool for assessing the crystal structure of the sample.

Figure 4: An XRD scan of Ni with a face-centered cubic structure is shown.

APPLICATIONS AND SUMMARY

This is a demonstration of a standard XRD experiment. The material examined in this experiment was in a powder form, but XRD works equally well with solid piece of material as long as the sample has a flat surface that can be set parallel to the plane of the sample stage.

XRD is a fairly ubiquitous method for determining the presence (or absence) of crystallographic order in materials. Beyond the standard application of determining the crystal structure, XRD is often used to obtain a variety of other structural information such as:

1. Whether or not the structure of a material is amorphous (characterized by a broad hump in the diffraction intensity and a lack of discernable crystallographic peaks),
2. Whether the sample is a composite material consisting of multiple crystallographic phases and, if so, determine the fraction of each phase,
3. Determining whether a material is an amorphous/crystalline composite
4. Determining the grain/particle size of the material,
5. Determining the degree of texture (preferred orientation of grains) in material