From Louvain to Leiden: guaranteeing well-connected communities
Tóm tắt
Từ khóa
Tài liệu tham khảo
Fortunato, S. Community detection in graphs. Phys. Rep. 486, 75–174, https://doi.org/10.1016/j.physrep.2009.11.002 (2010).
Porter, M. A., Onnela, J.-P. & Mucha, P. J. Communities in Networks. Not. AMS 56, 1082–1097 (2009).
Newman, M. E. J. & Girvan, M. Finding and evaluating community structure in networks. Phys. Rev. E 69, 026113, https://doi.org/10.1103/PhysRevE.69.026113 (2004).
Reichardt, J. & Bornholdt, S. Statistical mechanics of community detection. Phys. Rev. E 74, 016110, https://doi.org/10.1103/PhysRevE.74.016110 (2006).
Brandes, U. et al. On Modularity Clustering. IEEE Trans. Knowl. Data Eng. 20, 172–188, https://doi.org/10.1109/TKDE.2007.190689 (2008).
Clauset, A., Newman, M. E. J. & Moore, C. Finding community structure in very large networks. Phys. Rev. E 70, 066111, https://doi.org/10.1103/PhysRevE.70.066111 (2004).
Duch, J. & Arenas, A. Community detection in complex networks using extremal optimization. Phys. Rev. E 72, 027104, https://doi.org/10.1103/PhysRevE.72.027104 (2005).
Guimerà, R. & Nunes Amaral, L. A. Functional cartography of complex metabolic networks. Nature 433, 895–900, https://doi.org/10.1038/nature03288 (2005).
Newman, M. E. J. Finding community structure in networks using the eigenvectors of matrices. Phys. Rev. E 74, 036104, https://doi.org/10.1103/PhysRevE.74.036104 (2006).
Blondel, V. D., Guillaume, J.-L., Lambiotte, R. & Lefebvre, E. Fast unfolding of communities in large networks. J. Stat. Mech. Theory Exp. 10008, 6, https://doi.org/10.1088/1742-5468/2008/10/P10008 (2008).
Lancichinetti, A. & Fortunato, S. Community detection algorithms: A comparative analysis. Phys. Rev. E 80, 056117, https://doi.org/10.1103/PhysRevE.80.056117 (2009).
Yang, Z., Algesheimer, R. & Tessone, C. J. A Comparative Analysis of Community Detection Algorithms on Artificial Networks. Sci. Rep. 6, 30750, https://doi.org/10.1038/srep30750 (2016).
Traag, V. A., Van Dooren, P. & Nesterov, Y. Narrow scope for resolution-limit-free community detection. Phys. Rev. E 84, 016114, https://doi.org/10.1103/PhysRevE.84.016114 (2011).
Fortunato, S. & Barthélemy, M. Resolution Limit in Community Detection. Proc. Natl. Acad. Sci. USA 104, 36, https://doi.org/10.1073/pnas.0605965104 (2007).
Waltman, L. & van Eck, N. J. A smart local moving algorithm for large-scale modularity-based community detection. Eur. Phys. J. B 86, 471, https://doi.org/10.1140/epjb/e2013-40829-0 (2013).
Ozaki, N., Tezuka, H. & Inaba, M. A Simple Acceleration Method for the Louvain Algorithm. Int. J. Comput. Electr. Eng. 8, 207–218, https://doi.org/10.17706/IJCEE.2016.8.3.207-218 (2016).
Bae, S., Halperin, D., West, J. D., Rosvall, M. & Howe, B. Scalable and Efficient Flow-Based Community Detection for Large-Scale Graph Analysis. ACM Trans. Knowl. Discov. Data 11, 1–30, https://doi.org/10.1145/2992785 (2017).
Traag, V. A. Faster unfolding of communities: Speeding up the Louvain algorithm. Phys. Rev. E 92, 032801, https://doi.org/10.1103/PhysRevE.92.032801 (2015).
Luecken, M. D. Application of multi-resolution partitioning of interaction networks to the study of complex disease. Ph.D. thesis, (University of Oxford, 2016).
Wolf, F. A. et al. Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells. bioRxiv, https://doi.org/10.1101/208819 (2018).
Raghavan, U., Albert, R. & Kumara, S. Near linear time algorithm to detect community structures in large-scale networks. Phys. Rev. E 76, 036106, https://doi.org/10.1103/PhysRevE.76.036106 (2007).
Rotta, R. & Noack, A. Multilevel local search algorithms for modularity clustering. J. Exp. Algorithmics 16, 2.1, https://doi.org/10.1145/1963190.1970376 (2011).
Traag, V. A., Waltman, L. & van Eck, N. J. networkanalysis. Zenodo, https://doi.org/10.5281/zenodo.1466831 https://github.com/CWTSLeiden/networkanalysis. Source Code (2018).
Traag, V. A. leidenalg 0.7.0. Zenodo, https://doi.org/10.5281/zenodo.1469357 https://github.com/vtraag/leidenalg. Source Code (2018).
Bullmore, E. & Sporns, O. Complex brain networks: graph theoretical analysis of structural and functional systems. Nat. Rev. Neurosci. 10, 186–198, https://doi.org/10.1038/nrn2575 (2009).
Waltman, L. & van Eck, N. J. A new methodology for constructing a publication-level classification system of science. J. Am. Soc. Inf. Sci. Technol. 63, 2378–2392, https://doi.org/10.1002/asi.22748 (2012).
Klavans, R. & Boyack, K. W. Which Type of Citation Analysis Generates the Most Accurate Taxonomy of Scientific and Technical Knowledge? J. Assoc. Inf. Sci. Technol. 68, 984–998, https://doi.org/10.1002/asi.23734 (2017).
Lancichinetti, A., Fortunato, S. & Radicchi, F. Benchmark graphs for testing community detection algorithms. Phys. Rev. E 78, 046110, https://doi.org/10.1103/PhysRevE.78.046110 (2008).