******************
Projects using XGI
******************

XGI has been used in a variety of published work and other software. This is a list of projects that use XGI in substantive ways or use XGI-DATA. These are marked with [XGI] and [XGI-DATA], respectively.

Articles are listed by year and then alphabetically by the last name of the first author (and title if necessary).

Software Packages (8 total)
===========================

8. `hoi <https://brainets.github.io/hoi/>`_

7. `hypercontagion <https://hypercontagion.readthedocs.io/en/latest>`_

6. `hyperidpath <https://github.com/922397935/hyperiDPath-master>`_

5. `hyperspec <https://github.com/yaml-programming/hyperspec>`_

4. `hypersync <https://github.com/maximelucas/hypersync>`_

3. `pynetflow <https://github.com/anthbapt/pynetflow>`_

2. `segram <https://github.com/sztal/segram>`_

1. `simplicial-kuramoto <https://arnaudon.github.io/simplicial-kuramoto>`_


Published Work (35 total)
=========================

2026
----

35. [XGI] Cosimo Agostinelli, Marco Mancastroppa, and Alain Barrat, "Higher-order dissimilarity measures for hypergraph comparison", *Journal of Complex Networks*, Volume 14, Issue 1, cnaf048 (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.1093/comnet/cnaf048>`
:bdg-link-primary-line:`Code <https://github.com/cosimoagostinelli/Hor_dissimilarity_measures>`

34. [XGI-DATA] Antonio De Caro, Dario De Maio, Francesco Monzillo, Alessia Antelmi, and Biagio Cosenza, "Evaluating Portable Programming Models for Hypergraph Label Propagation on GPUs", *Proceedings of PDP 2026: 34th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing* (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.1109/PDP55228.2026.00024>`

33. [XGI, XGI-DATA] Maxime Lucas, Luca Gallo, Arsham Ghavasieh, Federico Battiston, and Manlio De Domenico, "Functional reducibility of higher-order networks", *Nature Communications* **17**, 1551 (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41467-025-68273-4>`
:bdg-link-primary-line:`Code <https://github.com/maximelucas/hypergraph_reducibility>`

32. [XGI] Alyssa Smith, Ilya Amburg, Sagar Kumar, Brooke Foucault Welles, and Nicholas W. Landry, "A Blue Start: A large-scale pairwise and higher-order social network dataset", *Scientific Data* **13**, 585 (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41597-026-06920-1>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/a-blue-start>`

2025
----

31. [XGI-DATA] Jordan Barrett, Paweł Prałat, Aaron Smith, and François Théberge, "Counting simplicial pairs in hypergraphs", Proceedings of Complex Networks & Their Applications XIII, pp 77–88 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1007/978-3-031-82431-9_7>`

30. [XGI] Dhrubajyoti Biswas and Soumyajit Seth, "Effect of higher-order interactions on aging transitions of coupled neurons", *Chaos, Solitons & Fractals*, Volume 200, Part 1, 116977 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1016/j.chaos.2025.116977>`

29. [XGI, XGI-DATA] Martín Coll, Cliff A. Joslyn, Nicholas W. Landry, Quintino Francesco Lotito, Audun Myers, Joshua Pickard, Brenda Praggastis, and Przemysław Szufel, "HIF: The hypergraph interchange format for higher-order networks", *Network Science* **13**, e21 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1017/nws.2025.10018>`
:bdg-link-primary-line:`Code <https://github.com/pszufe/HIF-standard>`

28. [XGI] Robin Delabays, Giulia De Pasquale, Florian Dörfler, and Yuanzhao Zhang, "Hypergraph reconstruction from dynamics", *Nature Communications* **16**, 2691 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41467-025-57664-2>`
:bdg-link-primary-line:`Code <https://github.com/TaylorBasedHypergraphInference/THIS>`

27. [XGI, XGI-DATA] Xie He, Philip S. Chodrow, and Peter J. Mucha, "Hypergraph Link Prediction via Hyperedge Copying", *Physical Review E* **112**, 024305 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2502.02386>`
:bdg-link-primary-line:`Code <https://github.com/hexie1995/HyperGraph>`

26. [XGI] Laurent Hébert-Dufresne, Nicholas W. Landry, Juniper Lovato, Jonathan St-Onge, Jean-Gabriel Young, Marie-Ève Couture-Ménard, Stéphane Bernatchez, Catherine Choquette, and Alan A. Cohen, "Governance as a complex, networked, democratic, satisfiability problem", *npj Complexity* **2**, 14 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s44260-025-00041-3>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/governance>`

25. [XGI-DATA] Alec Kirkley, Helcio Felippe, and Federico Battiston, "Structural Reducibility of Hypergraphs", *Physical Review Letters* **135**, 247401 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1103/xrn7-cz8v>`

24. [XGI, XGI-DATA] Nicholas W. Landry and Laurent Hébert-Dufresne, "Group Science: The Open Source Study of Higher-order Networks With XGI", *SIAM News* **58**, 8 (2025).

:bdg-link-primary-line:`Paper <https://www.siam.org/publications/siam-news/articles/group-science-the-open-source-study-of-higher-order-networks-with-xgi/>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/group-science-siam-news>`

23. [XGI] Tianyu Li, Ying Xie, Zhiqiu Ye, Jiapei Zeng, Yingqi Liu, Lu Liu, and Ya Jia, "Analysis of synchronization transitions in higher-order Kuramoto oscillator system with different orders of phase lags", , *Chaos, Solitons & Fractals*, Volume 199, Part 1, October 2025, 116749. (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1016/j.chaos.2025.116749>`

22. [XGI, XGI-DATA] Federico Malizia, Andrés Guzmán, Iacopo Iacopini, and István Z. Kiss, "Disentangling the Role of Heterogeneity and Hyperedge Overlap in Explosive Contagion on Higher-Order Networks", *Physical Review Letters* **135**, 207401 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1103/z3d5-94zb>`
:bdg-link-primary-line:`Code <https://github.com/federicomalizia/disentangling-the-role-of-heterogeneity-and-hyperedge-overlap-in-explosive-contagion>`

21. [XGI-DATA] Marco Nurisso, Marta Morandini, Maxime Lucas, Francesco Vaccarino, Tommaso Gili, and Giovanni Petri, "Higher-order Laplacian renormalization", *Nature Physics* (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41567-025-02784-1>`
:bdg-link-primary-line:`Code <https://github.com/nplresearch/higher_order_LRG>`

20. [XGI] Thomas Robiglio, Matteo Neri, Davide Coppes, Cosimo Agostinelli, Federico Battiston, Maxime Lucas, and Giovanni Petri, "Synergistic Signatures of Group Mechanisms in Higher-Order Systems", *Physical Review Letters* **134**, 137401 (2025).

:bdg-link-primary-line:`Paper <ttps://doi.org/10.1103/PhysRevLett.134.137401>`

19. [XGI] Yuyan Tong, Renhao Hong, Meng Li, Na Yang, Weihao Deng, Hui Tang, Tao Zeng, and Rui Liu, "Hi-C3: a statistical inference-based model for reconstructing higher-order cell–cell communication networks", *Briefings in Bioinformatics*, Volume 26, Issue 5, bbaf568 (2025).

:bdg-link-primary-line:`Paper <https://doi.org/10.1093/bib/bbaf568>`

2024
----

18. [XGI] Sinan G. Aksoy, Ilya Amburg, and Stephen J. Young, "Scalable Tensor Methods for Nonuniform Hypergraphs", *SIAM Journal on Mathematics of Data Science*, Vol. 6, Iss. 2, 481-503  (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1137/23M1584472>`
:bdg-link-primary-line:`Code <https://github.com/pnnl/GENTTSV>`

17. [XGI] Gonzalo Contreras-Aso, Regino Criado, and Miguel Romance, "Beyond directed hypergraphs: heterogeneous hypergraphs and spectral centralities", *Journal of Complex Networks*, Volume 12, Issue 4, cnae037 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1093/comnet/cnae037>`
:bdg-link-primary-line:`Code <https://github.com/goznalo-git/DirectedHyperCentrality>`

16. [XGI, XGI-DATA] Gonzalo Contreras-Aso, Cristian Pérez-Corral, and Miguel Romance, "Uplifting edges in higher order networks: spectral centralities for non-uniform hypergraphs", *AIMS Mathematics*, Volume 9, Issue 11: 32045-32075 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.3934/math.20241539>`
:bdg-link-primary-line:`Code <https://github.com/LaComarca-Lab/non-uniform-hypergraphs>`

15. [XGI] Iacopo Iacopini, Márton Karsai, and Alain Barrat, "The temporal dynamics of group interactions in higher-order social networks", *Nature Communications* **15**, 7391 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41467-024-50918-5>`
:bdg-link-primary-line:`Code <https://github.com/iaciac/temporal-group-interactions>`

14. [XGI, XGI-DATA] Nicholas W. Landry, Ilya Amburg, Mirah Shi, and Sinan Aksoy, "Filtering higher-order datasets", *Journal of Physics: Complexity* **5**, 015006 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1088/2632-072X/ad253a>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/filtering-higher-order-datasets>`

13. [XGI] Nicholas W. Landry, William Thompson, Laurent Hébert-Dufresne, and Jean-Gabriel Young, "Reconstructing networks from simple and complex contagions", *Physical Review E* **110**, L042301 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1103/PhysRevE.110.L042301>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/complex-network-reconstruction>`

12. [XGI, XGI-DATA] Nicholas W. Landry, Jean-Gabriel Young, and Nicole Eikmeier, "The simpliciality of higher-order networks", *EPJ Data Science* **13**, 17 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1140/epjds/s13688-024-00458-1>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/the-simpliciality-of-higher-order-networks>`

11. [XGI] Leonie Neuhäuser, Michael Scholkemper, Francesco Tudisco, and Michael T. Schaub, "Learning the effective order of a hypergraph dynamical system", *Science Advances* **10**, eadh4053 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1126/sciadv.adh4053>`
:bdg-link-primary-line:`Code <https://git.rwth-aachen.de/netsci/publication-2023-learning-the-effective-order-of-a-hypergraph-dynamical-system>`

10. [XGI] Corbit R. Sampson and Juan G. Restrepo, "Competing Social Contagions with Opinion Dependent Infectivity", *Physical Review E* **111**, 024313 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1103/PhysRevE.111.024313>`

9. [XGI-DATA] Guillaume St-Onge, Laurent Hébert-Dufresne, and Antoine Allard, "Nonlinear bias toward complex contagion in uncertain transmission settings", *PNAS* 121 (1) e2312202121 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1073/pnas.2312202121>`
:bdg-link-primary-line:`Code <https://github.com/gstonge/heterogeneous-transmission>`

8. [XGI-DATA] Junjie Zhang, Caixia Liu, Shuxin Liu, Yahui Wang, Jie Li, and Weifei Zang, "Robustness of higher-order interdependent networks with reinforced nodes", *Chaos* **34**, 083138 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1063/5.0217876>`

7. [XGI] Yuanzhao Zhang, Per Sebastian Skardal, Federico Battiston, Giovanni Petri, and Maxime Lucas, "Deeper but smaller: Higher-order interactions increase linear stability but shrink basins", *Science Advances* **10**,eado8049 (2024).

:bdg-link-primary-line:`Paper <https://doi.org/10.1126/sciadv.ado8049>`
:bdg-link-primary-line:`Code <https://github.com/maximelucas/basins_and_triangles>`

2023
----

6. [XGI] Gonzalo Contreras-Aso, Regino Criado, Guillermo Vera de Salas, and Jinling Yang, "Detecting communities in higher-order networks by using their derivative graphs", *Chaos, Solitons, and Fractals* **177**, 114200 (2023).

:bdg-link-primary-line:`Paper <https://doi.org/10.1016/j.chaos.2023.114200>`
:bdg-link-primary-line:`Code <https://github.com/LaComarca-Lab/HyperGraph-Communities>`

5. [XGI] Timothy LaRock and Renaud Lambiotte, "Encapsulation Structure and Dynamics in Hypergraphs", *Journal of Physics: Complexity* **4**, 045007 (2023).

:bdg-link-primary-line:`Paper <https://doi.org/10.1088/2632-072X/ad0b39>`
:bdg-link-primary-line:`Code <https://github.com/tlarock/encapsulation-dynamics>`

4. [XGI] Nicholas W. Landry and Juan Restrepo, "Opinion disparity in hypergraphs with community structure", *Physical Review E* **108**, 034311 (2023).

:bdg-link-primary-line:`Paper <https://doi.org/10.1103/PhysRevE.108.034311>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/opinion-disparity-in-hypergraphs>`

3. [XGI] Marco Mancastroppa, Iacopo Iacopini, Giovanni Petri, and Alain Barrat, "Hyper-cores promote localization and efficient seeding in higher-order processes", *Nature Communications* **14**, 6223 (2023).

:bdg-link-primary-line:`Paper <https://doi.org/10.1038/s41467-023-41887-2>`
:bdg-link-primary-line:`Code <https://github.com/marco-mancastroppa/hypercore-decomposition/>`

2. [XGI] Nicolò Ruggieri, Martina Contisciani, Federico Battiston, and Caterina de Bacco, "Community detection in large hypergraphs", *Science Advances* **9**, eadg9159 (2023).

:bdg-link-primary-line:`Paper <https://doi.org/10.1126/sciadv.adg9159>`
:bdg-link-primary-line:`Code <https://github.com/nickruggeri/Hy-MMSBM>`

1. [XGI] Yuanzhao Zhang, Maxime Lucas, and Federico Battiston, "Higher-order interactions shape collective dynamics differently in hypergraphs and simplicial complexes", *Nature Communications* **14**, 1605 (2023).

:bdg-link-primary-line:`Paper <http://doi.org/10.1038/s41467-023-37190-9>`
:bdg-link-primary-line:`Code <https://github.com/maximelucas/HOI_shape_sync_differently>`


Preprints (9 total)
===================

2026
----

9. [XGI] Kun Cao, Guangzu Bai, and Li Li, "Identifying Disruptive Technologies via Dynamic Hypergraph Modeling and Large Language Models", TechRxiv (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.36227/techrxiv.177223104.47525491/v1>`

8. [XGI-DATA] Hugo P. Maia, Guilherme Ferraz de Arruda, Silvio C. Ferreira, and Yamir Moreno, "Nesting Controls Phase Transitions in Higher-Order Contagion", arXiv:2604.23337 (2026).

:bdg-link-primary-line:`Paper <https://doi.org/10.48550/arXiv.2604.23337>`

7. [XGI] Emma Zajdela and Nicholas W. Landry, "Higher-order interactions at scientific conferences influence team formation", arXiv:2603.02571 (2026).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2603.02571>`
:bdg-link-primary-line:`Code <https://github.com/nwlandry/higher-order-team-formation>`

2025
----

6. [XGI-DATA] Margherita Bertè and Tommaso Gili, "Fibration Symmetries and Cluster Synchronization in Multi-Body Systems", arXiv:2510.11207 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2510.11207>`
:bdg-link-primary-line:`Code <https://github.com/margheritaberte/Fibration_symmetries_cluster_synchronization>`

5. [XGI-DATA] Cameron Ibrahim, S M Ferdous, Ilya Safro, Marco Minutoli, and Mahantesh Halappanavar, "ELRUHNA: Elimination Rule-based Hypergraph Alignment", arXiv:2506.09866 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2506.09866>`

4. [XGI] Leah A. Keating, Kwang-Il Goh, and Mason A. Porter, "An Approximate-Master-Equation Formulation of the Watts Threshold Model on Hypergraphs", arXiv:2503.04020 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2503.04020>`
:bdg-link-primary-line:`Code <https://github.com/leahkeating/threshold_AME>`

3. [XGI] Timothy LaRock and Renaud Lambiotte, "Exploring the Non-uniqueness of Node Co-occurrence Matrices of Hypergraphs", arXiv:2506.01479 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2506.01479>`
:bdg-link-primary-line:`Code <https://github.com/tlarock/twin_search/>`

2. [XGI, XGI-DATA] Hugo P. Maia, Wesley Cota, Yamir Moreno, and Silvio C. Ferreira, "Efficient Gillespie algorithms for spreading phenomena in large and heterogeneous higher-order networks", arXiv:2509.20174 (2025).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2509.20174>`
:bdg-link-primary-line:`Code <https://github.com/gisc-ufv/hyperSIS>`

2024
----

1. [XGI] Gülşah Akçakır, Amina Azaiez, Alberto Ceria, Clara Eminente, Guglielmo Ferranti, Govind Gandhi, Aishvarya Raj, and Iacopo Iacopini, "Exploring the interplay of individual traits and interaction dynamics in preschool social networks", arXiv:2407.12728 (2024).

:bdg-link-primary-line:`Paper <https://arxiv.org/abs/2407.12728>`


Theses (6 total)
================

2025
----

6. [XGI] Corbit Sampson, "Complex Social Systems: Emergent Phenomena, Social Contagions, and Opinion Consensus", The University of Colorado at Boulder (2025).

:bdg-link-primary-line:`Thesis <https://www.proquest.com/dissertations-theses/complex-social-systems-emergent-phenomena/docview/3205556558/se-2>`

2024
----

5. [XGI, XGI-DATA] Xie He, "Methods, Analyses, and Applications of Multilayer Temporal Link Prediction in Networks", Dartmouth College (2024).

:bdg-link-primary-line:`Thesis <https://digitalcommons.dartmouth.edu/dissertations/271/>`

4. [XGI, XGI-DATA] Yifei (Bell) Luo, "Efficient sampling of configuration model random hypergraphs", Middlebury College (2024).

:bdg-link-primary-line:`Thesis <https://libstore.ugent.be/fulltxt/RUG01/003/150/699/RUG01-003150699_2023_0001_AC.pdf>`

2023
----

3. [XGI] Leonie Neuhäuser, "Modelling the effect of groups on network structure and dynamics", RWTH Aachen University (2023).

:bdg-link-primary-line:`Thesis <https://doi.org/10.18154/RWTH-2023-08686>`

2. [XGI] Thomas Robiglio, "Higher-order structures in face-to-face interaction networks", Politecnico di Torino (2023).

:bdg-link-primary-line:`Thesis <https://webthesis.biblio.polito.it/27942/>`

2022
----

1. [XGI, XGI-DATA] Nicholas W. Landry, "Contagion on Complex Systems: Structure and Dynamics", The University of Colorado at Boulder (2022).

:bdg-link-primary-line:`Thesis <https://www.proquest.com/docview/2672014395>`