DFT with SIESTA, Data Visualization, and a Sophomore-level CURE with the MIT Atomic-Scale Modeling Toolkit

By David A Strubbe

Department of Physics, University of California, Merced, CA

Published on

Abstract

In this presentation, Dr. Strubbe discusses how he has been using the MIT Atomic-Scale Modeling Toolkit (which he co-developed) for a sophomore-level modern-physics class as well as an undergraduate/graduate condensed-matter physics class. He will focus on use of the density-functional theory (DFT) code SIESTA and visualization code XCrySDen, for calculations of structure, density, and wavefunctions, and visualization of these quantities as well as of Brillouin zones and Fermi surfaces. He uses the toolkit for a Course-based Undergraduate Research Experience (CURE) in modern physics to illustrate ideas of the particle-in-a-box model via heterojunctions of 2D materials. The students generate new data about heterojunctions, assessing quantum confinement of wavefunctions and their potential suitability for quantum well optoelectronic devices.

Bio

David Strubbe David Strubbe is an associate professor of physics and chair of the physics PhD program at the University of California, Merced and has been using and developing in nanoHUB since 2008. He was a postdoc in materials science and engineering at the Massachusetts Institute of Technology. He received his PhD in 2012 in the research group of Steven G. Louie at the Department of Physics, UC Berkeley, and was an NSF and Nano-IGERT fellow. He received his M.A. in physics, UC Berkeley, December 2007, and B.S. in chemistry and physics, University of Chicago, June 2005. He has received the NSF CAREER award and the Cottrell Scholar Award from the Research Corporation for Science Advancement.

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Researchers should cite this work as follows:

  • David A Strubbe (2024), "DFT with SIESTA, Data Visualization, and a Sophomore-level CURE with the MIT Atomic-Scale Modeling Toolkit," https://nanohub.org/resources/38790.

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DFT with SIESTA, Data Visualization, and a Sophomore-level CURE with the MIT Atomic-Scale Modeling Toolkit
  • DFT with SIESTA, Data Visualization, and a Sophomore-level CURE with the MIT Atomic-Scale Modeling Toolkit 1. DFT with SIESTA, Data Visualiz… 0
    00:00/00:00
  • PHYS 10: Introductory Physics III aka Modern Physics 2. PHYS 10: Introductory Physics … 92.359025692359026
    00:00/00:00
  • Course-based Undergraduate Research Experience (CURE) 3. Course-based Undergraduate Res… 217.45078411745078
    00:00/00:00
  • 2D materials: atomically thin crystals, periodic in 2D 4. 2D materials: atomically thin … 485.85251918585254
    00:00/00:00
  • Your research mission: quantum well structures in 2D materials 5. Your research mission: quantum… 527.52752752752758
    00:00/00:00
  • nanoHUB and the MIT Atomic-Scale Modeling Toolkit 6. nanoHUB and the MIT Atomic-Sca… 645.37871204537873
    00:00/00:00
  • SIESTA interface 7. SIESTA interface 831.031031031031
    00:00/00:00
  • CURE on heterojunctions 8. CURE on heterojunctions 881.68168168168177
    00:00/00:00
  • Visualization concept: isosurfaces, or in 2D isolines (contours) 9. Visualization concept: isosurf… 1050.7507507507507
    00:00/00:00
  • Question: which point has the largest absolute value of the wavefunction? 10. Question: which point has the … 1089.2892892892894
    00:00/00:00
  • Math/physics concept: envelope function 11. Math/physics concept: envelope… 1123.9239239239239
    00:00/00:00
  • From the square well model to quantum dots 12. From the square well model to … 1186.2195528862196
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  • From the square well model to quantum dots 13. From the square well model to … 1228.1614948281615
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  • An example: a molecule between pieces of gold, 14. An example: a molecule between… 1258.0246913580247
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  • Warm up: envelope functions in a system of square wells 15. Warm up: envelope functions in… 1325.9592926259593
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  • Common benchmark calculation: MoS2 / MoTe2 system 16. Common benchmark calculation: … 1428.9956623289956
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  • Some of my sketches from a solution in the 2022 edition 17. Some of my sketches from a sol… 1495.5622288955624
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  • Example calculation: WTe2 / WSe2 system 18. Example calculation: WTe2 / WS… 1542.8094761428094
    00:00/00:00
  • Example calculation: WTe2 / WSe2 system 19. Example calculation: WTe2 / WS… 1579.97997997998
    00:00/00:00
  • Exploring some other features: bandstructure 20. Exploring some other features:… 1650.9843176509844
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  • Improvements from 2022 to 2023 21. Improvements from 2022 to 2023 1744.1775108441775
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  • Student feedback in post-survey 22. Student feedback in post-surve… 1842.5425425425426
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  • Conclusions 23. Conclusions 1905.3386720053388
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  • Demo 24. Demo 2122.3556890223558
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