Publications

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Looking for information on how to cite XtalOpt in your own publications? See this page for details.

Method Papers

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Detailed Implementation Papers

The following publication details the implementation of XtalOpt, examining NaH, TiO₂, and SrTiO₃ as benchmarking cases:

• David C. Lonie, Eva Zurek; XtalOpt: An Open-Source Evolutionary Algorithm for Crystal Structure Prediction, Computer Physics Communications 182 (2011) pp. 372-387 DOI: 10.1016/j.cpc.2010.07.048. Preprint (free)

This paper describes the duplicate matching algorithm used by XtalOpt, named XtalComp, which is available as an open-source code and has a public web interface.

• David C. Lonie, Eva Zurek; Identifying Duplicate Crystal Structures: XtalComp, an Open-Source Solution, Computer Physics Communications 183 (2012) pp. 690-697 DOI: 10.1016/j.cpc.2011.11.007. Preprint (free)

The following paper describes RandSpg, an algorithm used by XtalOpt for the random symmetric initialization of crystals,
which is available as an open-source code and has a public web interface.

• Patrick Avery, Eva Zurek; RandSpg: An open-source program for generating atomistic crystal structures with specific spacegroups, Computer Physics Communications 213 (2017) pp. 208-216 DOI: 10.1016/j.cpc.2016.12.005. Preprint (free)

New Version Announcements

• Version r12.0 Patrick Avery, Cormac Toher, Stefano Curtarolo, Eva Zurek; XtalOpt version r12: An open-source evolutionary algorithm for crystal structure prediction Computer Physics Communications 237 (2019) pp. 274-275 DOI: 10.1016/j.cpc.2018.11.016. Preprint (free)
• Version r11.0 Patrick Avery, Zackary Falls, Eva Zurek; XtalOpt version r11: An open-source evolutionary algorithm for crystal structure prediction Computer Physics Communications 222 (2018) pp. 418-419 DOI: 10.1016/j.cpc.2017.09.011. Preprint (free)
• Version r10.0 Patrick Avery, Zackary Falls, Eva Zurek; XtalOpt Version r10: An Open-Source Evolutionary Algorithm for Crystal Structure Prediction Computer Physics Communications 217 (2017) pp. 210-211 DOI: 10.1016/j.cpc.2017.04.001. Preprint (free)
• Version r9.0 Zackary Falls, David C. Lonie, Patrick Avery, Andrew Shamp, Eva Zurek; XtalOpt Version r9: An Open-Source Evolutionary Algorithm for Crystal Structure Prediction Computer Physics Communications 199 (2016) pp. 178-179 DOI: 10.1016/j.cpc.2015.09.018. Preprint (free)
• Version r7.0 David C. Lonie, Eva Zurek; XtalOpt Version r7: An Open-Source Evolutionary Algorithm for Crystal Structure Prediction, Computer Physics Communications 182 (2011) pp. 2305-2306 DOI: 10.1016/j.cpc.2011.06.003. Preprint (free)

Applications

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2022

1. L. T. Nguyen and G. Makov, GeS Phases from First-Principles: Structure Prediction, Optical Properties, and Phase Transitions upon Compression Cryst. Growth Des. 2022, 22, 4956−4969 DOI: 10.1021/acs.cgd.2c00497
2. H. J. Yang, M. Redington, D. P. Miller, E. Zurek, M. Kim, C.-S. Yoo, S. Y. Lim, H. Cheong, S.-A. Chae, D. Ahn, and N. H. Hur, New Monoclinic Ruthenium Dioxide with Highly Selective Hydrogenation Activity Catal. Sci. Technol., 2022, 12, 6556 DOI: 10.1039/d2cy00815g
3. N. Geng, T. Bi, and E. Zurek, Structural Diversity and Superconductivity in S−P−H Ternary Hydrides under Pressure J. Phys. Chem. C 2022, 126, 7208−7220 DOI: 10.1021/acs.jpcc.1c10976
4. B. Wang, K. P. Hilleke, X. Wang, D. N. Polsin, and E. Zurek, Topological Electride Phase of Sodium at High Pressures and Temperatures arXiv:2205.06251 DOI: 10.48550/arXiv.2205.06251
5. Ł. Wolański, M. Metzelaars, J. V. Leusen, P. Kögerler, and W. Grochala, Structural Phase Transitions and Magnetic Superexchange in M^IAg^IIF₃ Perovskites at High Pressure Chem. Eur. J. 2022, 28, e202200712 DOI: 10.1002/chem.202200712
6. J. Gawraczyński, Ł. Wolański, A. Grzelak, Z. Mazej, V. Struzhkin, and W. Grochala, Phase Transitions and Amorphization of M₂AgF₄ (M = Na, K, Rb) Compounds at High Pressure Pressure. Crystals 2022, 12, 458 DOI: 10.3390/cryst12040458

2021

7. D. Kurzydłowski, M. A. Kuzovnikovb, and M. Tkacz, High-pressure phase transition of AB₃-type compounds: case of tellurium trioxide RSC Adv., 2021, 11, 14316 DOI: 10.1039/d1ra02344f
8. A. Vasylenko, J. Gamon, B. B. Duff, et al., Element selection for crystalline inorganic solid discovery guided by unsupervised machine learning of experimentally explored chemistry Nat Commun 12, 5561 (2021) DOI: 10.1038/s41467-021-25343-7
9. D. Kurzydłowski, A. Gajek, and Z. Mazej, NaZnF₃ as a low-pressure analogue of MgSiO₃ Phys. Rev. Materials 5, 113602 (2021) DOI: 10.1103/PhysRevMaterials.5.113602
10. L. T. Nguyen and G. Makov, High-Pressure Phases of SnO and PbO: A Density Functional Theory Combined with an Evolutionary Algorithm Approach Materials 2021, 14, 6552 DOI: 10.3390/ma14216552
11. T. Bi, A. Shamp, T. Terpstra, R. J. Hemley, and E. Zurek, The Li–F–H ternary system at high pressures J. Chem. Phys. 154, 124709 (2021) DOI: 10.1063/5.0041490
12. K. P. Hilleke, T. Ogitsu, S. Zhang, and E. Zurek, Structural motifs and bonding in two families of boron structures predicted at megabar pressures Phys. Rev. Mater. 5 (2021) 053605 DOI: 10.1103/PhysRevMaterials.5.053605
13. D. Kurzydlowski, M. Derzsi, E. Zurek, and W. Grochala, Fluorides of Silver Under Large Compression Chem. Eur. J. 27 (2021) 5536-5545. DOI: 10.1002/chem.202100028
14. D. A. Domanski and W. Grochala, The fate of compound with AgF₂: AgO stoichiometry—A theoretical study J. Chem. Phys. 154, (2021) 204705 DOI: 10.1063/5.0049707
15. D. A. Domanski, M. Derzsi, and W. Grochala, Theoretical study of ternary silver fluorides AgMF4 (M= Co, Ni, Cu) formation at pressures up to 20 GPa RSC Adv. 11, (2021) 25801-25810 DOI: 10.1039/D1RA04970D

2020

16. Y. Yan, T. Bi, N. Geng, X. Wang, and E. Zurek, A metastable CaSH3 phase composed of HS honeycomb sheets that is superconducting under pressure J. Phys. Chem. Lett. 2020, 11, 22, 9629–9636 DOI: 10.1021/acs.jpclett.0c02299
17. D. Kurzydlkowski, S. Kobyakov, Z. Mazej, S. B. Pillai, B. Chakraborty, and P. K. Jha, Unexpected persistence of cis-bridged chains in compressed AuF3 Chem. Commun. 56, (2020) 4902-4905 DOI: 10.1039/D0CC01374A
18. W. Cui, T. Bi, J. Shi, Y. Li, H. Liu, E. Zurek, and R. J. Hemley, Route to high-Tc superconductivity via CH4-intercalated H3s hydride perovskites Phys. Rev. B 101, (2020) 134504 DOI: 10.1103/PhysRevB.101.134504
19. D. Kurzydlkowski, A. Oleksiak, S. B. Pillai, and P. K. Jha, High-Pressure Phase Transitions of Zinc Difluoride up to 55 GPa Inorg. Chem. XXXX, XXX, (2020) XXX-XXX DOI: 10.1021/acs.inorgchem.9b03553

2019

20. P. Avery, X. Wang, C. Oses, E. Gossett, M. Proserpio, C. Toher, S. Cutarolo & E. Zurek Predicting superhard materials via a machine learning informed evolutionary structure search npj Comput. Mater. 5, (2019) 89 DOI: 10.1038/s41524-019-0226-8
21. N. Geng, T. Bi, N. Zarifi, Y. Yan, and E. Zurek, Na_xS_y Binary Phases at 1 atm and Under Pressure Crystals 2019, 9(9), 441 DOI: 10.3390/cryst9090441
22. Z. Fu, T. Bi, S. Zhang, S. Chen, E. Zurek, D. Legut, T. C. Germann, T. Lookman, R. Zhang, Anchoring effect of distorted octahedra on the stability and strength of platinum metal pernitrides Phys. Rev. Mater. 3.013603 (2019) DOI: 10.1103/PhysRevMaterials.3.013603

2018

23. S. Singh, S. Char, D. L. V. K. Prasad, Ag-Au alloys BCS-like Superconductors? (2018) arXiv:1812.09308 [cond-mat.supr-con]
24. N. Zarifi, T. Bi, H. Liu, E. Zurek, Crystal Structures and Properties of Iron Hydrides at High Pressure J. Phys. Chem. C. 122.42 (2018) pp. 24262-24269 DOI: 10.1021/acs.jpcc.8b06934
25. A. K. Mishra, T. Muramatsu, H. Liu, Z. M. Geballe, M. Somayazulu, M. Ahart, M. Baldini, Y. Meng, E. Zurek, R. J. Hemley New Calcium Hydrides with Mixed Atomic and Molecular Hydrogen J. Phys. Chem. C. 122.34 (2018) pp. 19370-19378 DOI: 10.1021/acs.jpcc.8b05030
26. N. Zarifi, H. Liu, J. S. Tse, E. Zurek Crystal Structures and Electronic Properties of Xe-Cl Compounds at High Pressure J. Phys. Chem. C. 122.5 (2018) pp. 2941-2950 DOI: 10.1021/acs.jpcc.7b10810
27. X. Ye, N. Zarifi, E. Zurek, R. Hoffmann, N. Ashcroft High Hydrides of Scandium under Pressure: Potential Superconductors J. Phys. Chem. C. 122.11 (2018) pp. 6298-6309 DOI: 10.1021/acs.jpcc.7b12124
28. D. Kurzydłowski The Jahn-Teller Distortion at High Pressure: The Case of Copper Difluoride Crystals 8.3 (2018) pp. 140 DOI: 10.3390/cryst8030140

2017

29. R. Martoňák, D. Ceresoli, T. Kagayama, Y. Matsuda, Y. Yamada, E. Tosatti High-pressure phase diagram, structural transitions, and persistent nonmetallicity of BaBiO3: Theory and experiment Phys. Rev. Materials 1.023601 (2017) DOI: 10.1103/physrevmaterials.1.023601
30. B. Eifert, M. Becker, C. T. Reindl, M. Giar, L. Zheng, A. Polity, Y. He, C. Heiliger, P. J. Klar Raman studies of the intermediate tin-oxide phase Phys. Rev. Materials 1.014602 (2017) DOI: 10.1103/physrevmaterials.1.014602
31. O. Kohulák, R. Martoňák New high-pressure phases of MoSe2 and MoTe2 Phys. Rev. B 95.5 (2017) DOI: 10.3847/0004-637X/818/2/183
32. T. Bi, D. P. Miller, A. Shamp, E. Zurek Superconducting Phases of Phosphorus Hydride Under Pressure: Stabilization via Mobile Molecular Hydrogen Angew. Chem. Int. Ed. 56 (2017) pp. 10192-10195 DOI: 10.1002/ange.201701660

2016

33. T. A. Engstrom, N. C. Yoder, V. H. Crespi Crystal chemistry of three-component white dwarfs and neutron star crusts: phase stability, phase stratification, and physical properties Astrophys. J. 18.2 (2016) pp. 183 DOI: 10.3847/0004-637X/818/2/183
34. R. F. Zhang, X. D. Wen, D. Legut, Z. H. Fu, S. Veprek, E. Zurek, H. K. Mao Crystal Field Splitting is Limiting the Stability and Strength of Ultra-incompressible Orthorhombic Transition Metal Tetraborides Scientific Reports 6.23088 (2016) DOI: 10.1038/srep23088
35. Andreas Hermann High-pressure phase transitions in rubidium and caesium hydroxides Phys. Chem. Chem. Phys. 18 (2016) pp. 16527 DOI: 10.1039/c6cp03203f
36. F. Capitani, M. Höppner, L. Malavasi, C. Marini, G. A. Artioli, M. Hanfland, P. Dore, L. Boeri○, P. Postorino. Structural Evolution of Solid Phenanthrene at High Pressures J. Phys. Chem. C. 120.26 (2016) pp. 14310–14316 DOI: 10.1021/acs.jpcc.6b04326
37. Yuta Tsuji, Prasad L. V. K. Dasari, S. F. Elatresh, Roald Hoffmann, N. W. Ashcroft. Structural Diversity and Electron Confinement in Li₄N: Potential for 0-D, 2-D, and 3-D Electrides J. Am. Chem. Soc. 138.42 (2016) pp. 14108–14120 DOI: 10.1021/jacs.6b09067
38. Dušan Plašienka, Roman Martoňák, Erio Tosatti; Creating new layered structures at high pressures: SiS₂ Scientific Reports. 6.37694 (2016) DOI: 10.1038/srep37694
39. Andreas Hermann, Mainak Mookherjee; High-pressure phase of brucite stable at Earth’s mantle transition zone and lower mantle conditions Proc. Natl. Acad. Sci. U. S. A. 113.49 (2016) pp. 13971-13976 DOI: 10.1073/pnas.1611571113
40. Andreas Hermann, Mariana Derzsi, Wojciech Grochala, Roald Hoffmann; AuO: Evolving from Dis- to Comproportionation and Back Again Inorganic Chemistry 55.3 (2016) pp. 1278-1286 DOI: 10.1021/acs.inorgchem.5b02528
41. Andrew Shamp, Tyson Terpstra, Tiange Bi, Zackary Falls, Patrick Avery, Eva Zurek; Decomposition Products of Phosphine Under Pressure: PH2 Stable and Superconducting? Journal of American Chemical Society 138.6 (2016) pp. 1884-1892 DOI: 10.1021/jacs.5b10180

2015

42. Andreas Hermann, Malcolm Guthrie, Richard J. Nelmes, John S. Loveday; Pressure-induced localisation of the hydrogen-bond network in KOH-VI The Journal of Chemical Physics 143.24 (2015) pp. 244706 DOI: 10.1063/1.4938260
43. Yangzheng Lin, Timothy A. Strobel, R. E. Cohen; Structural diversity in lithium carbides Physical Review B 92.21 (2015) pp. 214106 DOI: 10.1103/PhysRevB.92.214106
44. Mandy Bethkenhagen, Daniel Cebulla, Ronald Redmer, Sebastien Hamel; Superionic Phases of the 1:1 Water–Ammonia Mixture The Journal of Physical Chemistry A 119.42 (2015) pp. 10582-10588 DOI: 10.1021/acs.jpca.5b07854
45. Andrew Shamp, Eva Zurek; Superconducting High-Pressure Phases Composed of Hydrogen and Iodine Journal of Physical Chemistry Letters 6.20 (2015) pp. 4067-4072 DOI: 10.1021/acs.jpclett.5b01839
46. Oto Kohulák, Roman Martoňák, Erio Tosatti; High-pressure structure, decomposition, and superconductivity of MoS₂ Physical Review B 91.14 (2015) pp. 144113 DOI: 10.1103/PhysRevB.91.144113
47. Eva Zurek, Yansun Yao; Theoretical Predictions of Novel Superconducting Phases of BaGe3 Stable at Atmospheric and High Pressures Inorganic chemistry 54.6 (2015) pp. 2875-2884 DOI: 10.1021/ic5030235
48. Andrew Shamp, Patrick Saitta, Eva Zurek; Theoretical predictions of novel potassium chloride phases under pressure Physical Chemistry Chemical Physics 17.18 (2015): 12265-12272 DOI: 10.1039/C5CP00470E

2014

49. Patryk Zaleski-Ejgierd; High-pressure formation and stabilization of binary iridium hydrides Physical Chemistry Chemical Physics 16.7 (2014) pp. 3220-3229 DOI: 10.1039/C3CP54300E
50. James Hooper, Donna A. Kunkel, Scott Simpson, Sumit Beniwal, Axel Enders, Eva Zurek; Chiral surface networks of 3-HPLN—A molecular analog of rounded triangle assembly Surface Science 629 (2014) pp. 65-74 DOI: 10.1016/j.susc.2014.04.015
51. R. E. Cohen, Yangzheng Lin; Prediction of a potential high-pressure structure of FeSiO₃ Physical Review B 90.14 (2014) pp. 140102 DOI: 10.1103/PhysRevB.90.140102
52. Andreas Hermann, Peter Schwerdtfeger; Xenon Suboxides Stable under Pressure The Journal of Physical Chemistry Letters 5.24 (2014) pp. 4336-4342 DOI: 10.1021/jz502230b
53. Andreas Hermann, N. W. Ashcroft, Roald Hoffmann; Lithium hydroxide, LiOH, at elevated densities Journal of Chemical Physics 141 (2014) pp. 024505 (1-11) DOI: 10.1063/1.4886335
54. James Hooper, Tyson Terpstra, Andrew Shamp, Eva Zurek; Composition and Constitution of Compressed Strontium Polyhydrides The Journal of Physical Chemistry C 118 (2014) pp. 6433-6447 DOI: 10.1021/jp4125342
55. Khalid Alkaabi, Dasari L. V. K. Prasad, Peter Kroll, N. W. Ashcroft, Roald Hoffmann; Silicon Monoxide at 1 atm and Elevated Pressures: Crystalline or Amorphous? Journal of the American Chemical Society 136 (2014) pp. 3410-3423 DOI: 10.1021/ja409692c

2013

56. Dasari, L. V. K. Prasad, N. W.Ashcroft, Roald Hoffmann; Evolving Structural Diversity and Metallicity in Compressed Lithium Azide Journal of Physical Chemistry C 117 (2013) pp. 20838-20846 DOI: 10.1021/jp405905k
57. Mariana Derzsi, Andreas Hermann, Roald Hoffmann, Wojciech Grochala; The Close Relationships between the Crystal Structures of MO and MSO4 (M = Group 10, 11, or 12 Metal), and the Predicted Structures of AuO and PtSO4 European Journal of Inorganic Chemistry 29 (2013) pp. 5094-5102 DOI: 10.1002/ejic.201300769
58. Andreas Hermann, Hoffmann Roald, N. W. Ashcroft; Condensed Astatine: Monoatomic and Metallic Physical Review Letters 111 (2013) pp. 116404 (1-5) DOI: 10.1103/PhysRevLett.111.116404
59. Andreas Hermann, N. W. Ashcroft, Roald Hoffmann; Binary Compounds of Boron and Beryllium: A Rich Structural Arena with Space for Predictions Chemistry-A European Journal 19 (2013) pp. 4184-4197 DOI: 10.1002/chem.201203890.
60. David C. Lonie, James Hooper, Bahadir Altintas, Eva Zurek; Metallization of magnesium polyhydrides under pressure Physical Review B 87 (2013) pp. 054107-054114 DOI: 10.1103/PhysRevB.87.054107
61. James Hooper, Bahadir Altintas, Andrew Shamp, Eva Zurek; Polyhydrides of the Alkaline Earth Metals: A Look at the Extremes under Pressure The Journal of Physical Chemistry C 117 (2013) pp. 2982-2992 DOI: 10.1021/jp311571n

2012

62. James Hooper, Eva Zurek; Rubidium Polyhydrides Under Pressure: Emergence of the Linear H-3(-) Species Chemistry-A European Journal 18 (2012) pp. 5013-5021 DOI: 10.1002/chem.201103205.
63. James Hooper, Eva Zurek; High Pressure Potassium Polyhydrides: A Chemical Perspective Journal of Physical Chemistry C 116 (2012) pp. 13322-13328 DOI: 10.1021/jp303024h.
64. Andreas Hermann, B. L. Ivanov, N. W. Ashcroft, Roald Hoffmann; LiBeB: A predicted phase with structural and electronic peculiarities Physical Review B 86 (2012) pp. 014104 DOI:10.1103/PhysRevB.86.014104.
65. Andreas Hermann, N. W. Ashcroft, Roald Hoffmann; Making Sense of Boron-Rich Binary Be-B Phases Inorganic Chemistry 51 (2012) pp. 9066-9075 DOI: 10.1021/ic301215y.
66. Andrew Shamp, James Hooper, Eva Zurek; Compressed Cesium Polyhydrides: Cs+ Sublattices and H-3(-) Three-Connected Nets Inorganic Chemistry 51 (2012) pp. 9333-9342 DOI: 10.1021/ic301045v.
67. Dasari L. V. K. Prasad, N. W. Ashcroft, Roald Hoffmann; Lithium Amide (LiHN2) Under Pressure Journal of Physical Chemistry A 116 (2012) pp. 10027-10036 DOI: 10.1021/jp3078387.
68. Andrea Hermann, Ainhoa Suarez-Alcubilla, Idoia Gurtubay, Li-Ming Yang, Aitor Bergara, N. W. Ashcroft, Roald Hoffmann; LiB and its boron-deficient variants under pressure Physical Review B 86 (2012) pp. 144110 DOI:10.1103/PhysRevB.86.144110
69. James Hooper, Eva Zurek; Lithium Subhydrides under Pressure and Their Superatom-like Building Blocks Chem Plus Chem 77 (2012) pp. 969-972 DOI: 10.1002/cplu.201290047.
70. Andreas Hermann, Alexandra Mc Sorley, N. W. Ashcroft, Roald Hoffmann; From Wade-Mingos to Zintl-Klemm at 100 GPa: Binary Compounds of Boron and Lithium Journal of the American Chemical Society 134 (2012) pp. 18606-18618 doi:10.1021/ja308492g.
71. Patryk Zaleski-Ejgierd, Vanessa Labet, Timothy A Strobel, Roald Hoffmann, N.W. Ashcroft; WH_n under pressure Journal of Physics: Condensed Matter 24 (2012) 155701 doi:10.1088/0953-8984/24/15/155701.
72. Andreas Hermann, N. W. Ashcroft, and Roald Hoffmann; High pressure ices Proceedings of the National Academy of Sciences 109 (2012) pp. 745-750 doi:10.1073/pnas.1118694109.

2011

73. Vanessa Labet, Roald Hoffmann, Neil W. Ashcroft; Molecular models for WH₆ under pressure, New Journal of Chemistry 35 (2011) pp. 2349-2355 doi:10.1039/c1nj20560a.
74. Xiao-Dong Wen, Roald Hoffmann, Neil W. Ashcroft; Benzene under High Pressure: a Story of Molecular Crystals Transforming to Saturated Networks, with a Possible Intermediate Metallic Phase, Journal of the American Chemical Society 133 (2011) pp. 9023-9035 doi:10.1021/ja201786y.
75. James Hooper, Pio Baettig, Eva Zurek; Pressure Induced Structural Transitions in KH, RbH and CsH, Journal of Applied Physics, 111 (2012) pp. 112611 doi:10.1063/1.4726210.
76. Pio Baettig, Eva Zurek; Pressure-Stabilized Sodium Polyhydrides: NaH_n (n>1), Physical Review Letters, 2011;106(23) doi:10.1103/PhysRevLett.106.237002

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