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@Article{Dufrene1997,
  author  = {Dufrêne, M. and Legendre, P.},
  title   = {Species assemblages and indicator species: The need for a flexible asymmetrical approach.},
  journal = {Ecological Monographs},
  year    = {1997},
  volume  = {67},
  pages   = {345--366},
}

@Article{Bernardo2019,
  author     = {Bernardo-Madrid, R. and Calatayud, J. and González‐Suárez, M. and Rosvall, M. and Lucas, P. and Antonelli, A. and Revilla, E.},
  journal    = {Ecology letters},
  title      = {Human activity is altering the world’s zoogeographical regions.},
  year       = {2019},
  pages      = {1297--1305},
  volume     = {22},
}

@Article{Divisek2016,
  author  = {Divíšek, J. and Storch, D. and Zelený, D. and Culek, M.},
  journal = {Journal of biogeography},
  title   = {Towards the spatial coherence of biogeographical regionalizations at subcontinental and landscape scales.},
  year    = {2016},
  pages   = {2489--2501},
  volume  = {43},
}

@Article{Lenormand2019,
  author     = {Lenormand, M. and Papuga, G. and Argagnon, O. and Soubeyrand, M. and Alleaume, S. and Luque, S.},
  journal    = {Ecology and evolution},
  title      = {Biogeographical network analysis of plant species distribution in the Mediterranean region.},
  year       = {2019},
  pages      = {237--250},
  volume     = {9}
}

@Article{Guimera2005,
  author  = {Guimerà, R. and Amaral, L. A. N.},
  journal = {Nature},
  title   = {Functional cartography of complex metabolic networks.},
  year    = {2005},
  pages   = {895--900},
  volume  = {433},
}

@Article{Frey2007,
  author     = {Frey, B. and Dueck, D.},
  journal    = {Science},
  title      = {Clustering by Passing Messages Between Data Points.},
  year       = {2007},
  pages      = {972--976},
  volume     = {315}
}

@Article{Schubert2019,
  author     = {Schubert, E. and Rousseeuw, P. J.},
  journal    = {Similarity Search and Applications},
  title      = {Faster k-Medoids Clustering: Improving the PAM, CLARA, and CLARANS Algorithms.},
  year       = {2019},
  pages      = {171--187},
  volume     = {11807}
}

@InProceedings{Kaufman2009,
  author    = {Kaufman, L. and Rousseeuw, P. J.},
  booktitle = {Finding groups in data: An introduction to cluster analysis.},
  title     = {Finding groups in data: An introduction to cluster analysis.},
  year      = {2009},
  editor    = {John Wiley & Sons.},
  publisher = {John Wiley & Sons.}
}


@Article{Hartigan1979,
  author  = {Hartigan, J. A. and Wong, M. A.},
  journal = {Journal of the royal statistical society. series c (applied statistics)},
  title   = {Algorithm {AS} 136: {A} k-means clustering algorithm},
  year    = {1979},
  number  = {1},
  pages   = {100--108},
  volume  = {28},
}

@article{Traag2019,
	title = {From {Louvain} to {Leiden}: guaranteeing well-connected communities},
	volume = {9},
	shorttitle = {From {Louvain} to {Leiden}},
	number = {1},
	journal = {Scientific reports},
	author = {Traag, Vincent A. and Waltman, Ludo and Van Eck, Nees Jan},
	year = {2019},
	note = {Publisher: Nature Publishing Group UK London},
	pages = {5233},
}

@Article{Lancichinetti2011,
  author  = {Lancichinetti, A. and Radicchi, F. and Ramasco, J. J. and Fortunato, S.},
  journal = {PLOS ONE},
  title   = {Finding statistically significant communities in networks},
  year    = {2011},
  number  = {4},
  pages   = {e18961},
  volume  = {6},
}

@Article{Clauset2004,
  author  = {Clauset, A. and Newman, M. E. J. and Moore, C.},
  journal = {Phys. Rev. E},
  title   = {Finding community structure in very large networks},
  year    = {2004},
  pages   = {066111},
  volume  = {70},
}

@Article{Farage2021,
  author  = {Farage, C. and Edler, D. and Eklöf, A. and Rosvall, M. and Pilosof, S.},
  journal = {Methods in Ecology and Evolution},
  title   = {{Identifying Flow Modules in Ecological Networks Using Infomap.}},
  year    = {2021},
  number  = {5},
  pages   = {778--786},
  volume  = {12},
}

@Article{Scrucca2016,
  author  = {Scrucca, L. and Fop, M. and Murphy, T. B. and Raftery, A. E.},
  journal = {R Journal},
  title   = {Mclust 5: Clustering, classification and density estimation using Gaussian finite mixture models},
  year    = {2016},
  number  = {1},
  pages   = {289--317},
  volume  = {8},
}

@Article{Hahsler2019,
  author  = {Hahsler, M. and Piekenbrock, M. and Doran, D.},
  journal = {Journal of Statistical Software},
  title   = {Dbscan: Fast density-based clustering with R},
  year    = {2019},
  number  = {1},
  pages   = {1--30},
  volume  = {91},
}

@Article{Baselga2012,
  author  = {Baselga, A.},
  journal = {Global Ecology and Biogeography},
  title   = {The Relationship between Species Replacement, Dissimilarity Derived from Nestedness, and Nestedness},
  year    = {2012},
  number  = {12},
  pages   = {1223--1232},
  volume  = {21},
}

@Article{Baselga2013,
  author  = {Baselga, A.},
  journal = {Methods in Ecology and Evolution},
  title   = {Separating the two components of abundance-based dissimilarity: balanced changes in abundance vs. abundance gradients},
  year    = {2013},
  number  = {6},
  pages   = {552--557},
  volume  = {4},
}

@ARTICLE{Rosvall2008,
  author = {Rosvall, M. and Bergstrom, C. T.},
  title = {{Maps of random walks on complex networks reveal community structure}},
  journal = {Proceedings of the National Academy of Sciences},
  year = {2008},
  volume = {105},
  pages = {1118--1123},
  number = {4}
}

@Article{Blondel2008,
  author  = {Blondel, V. D. and Guillaume, J. L. and Lambiotte, R. and Mech, E. L. J. S.},
  journal = {J. Stat. Mech},
  title   = {{Fast unfolding of communities in large networks}},
  year    = {2008},
  number  = {10},
  pages   = {P10008},
  volume  = {2008},
}

@Article{Kreft2010,
  author  = {Kreft, H. and Jetz, W.},
  journal = {Journal of Biogeography},
  title   = {{A framework for delineating biogeographical regions based on species distributions}},
  year    = {2010},
  pages   = {2029--2053},
  volume  = {37},
}

@Article{Holt2013,
  author  = {Holt, B. G. and Lessard, J.-P. and Borregaard, M. K. and Fritz, S. A. and Araújo, M. B and Dimitrov, D. and Fabre, P.-H. and Graham, C. H. and Graves, G. R. and Jønsson, K. a and Nogués-Bravo, D. and Wang, Z. and Whittaker, R. J. and Fjeldså, J. and Rahbek, C.},
  journal = {Science},
  title   = {{An update of Wallace's zoogeographic regions of the world}},
  year    = {2013},
  number  = {6115},
  pages   = {74--78},
  volume  = {339},
}

@Article{Langfelder2008,
  author  = {Langfelder, P. and Zhang, B. and Horvath, S.},
  journal = {BIOINFORMATICS},
  title   = {Defining clusters from a hierarchical cluster tree: the Dynamic Tree Cut package for R},
  year    = {2008},
  number  = {5},
  pages   = {719--720},
  volume  = {24},
}

@Article{Castro-Insua2018,
  author  = {Castro-Insua, A. and Gómez-Rodríguez, C. and Baselga, A.},
  journal = {Nature Communications},
  title   = {{Dissimilarity measures affected by richness differences yield biased delimitations of biogeographic realms}},
  year    = {2018},
  number  = {1},
  pages   = {9--11},
  volume  = {9},
}

@Article{Ficetola2017,
  author  = {Ficetola, G. F. and Mazel, F. and Thuiller, W.},
  journal = {Nature Ecology & Evolution},
  title   = {{Global determinants of zoogeographical boundaries}},
  year    = {2017},
  pages   = {0089},
  volume  = {1},
}

@Article{Raghavan2007,
  author  = {Raghavan, U. N. and Albert, R. and Kumara, S.},
  journal = {Physical Review E},
  title   = {Near linear time algorithm to detect community structures in large-scale networks},
  year    = {2007},
  number  = {3},
  pages   = {036106},
  volume  = {76},
}

@Article{Newman2006,
  author  = {Newman, M. E. J.},
  title   = {Finding community structure in networks using the eigenvectors of matrices},
  journal = {Physical Review E},
  year    = {2006},
  volume  = {74},
  number  = {3},
  pages   = {036104},
}

@InProceedings{Pons2005,
  author    = {Pons, P. and Latapy, M.},
  booktitle = {Computer and {Information} {Sciences} - {ISCIS} 2005},
  title     = {Computing {Communities} in {Large} {Networks} {Using} {Random} {Walks}},
  year      = {2005},
  address   = {Berlin, Heidelberg},
  editor    = {Yolum, I. and Güngör, T. and Gürgen, F. and Özturan, C.},
  pages     = {284--293},
  publisher = {Springer},
}

@Article{Beckett2016,
  author  = {Beckett, S. J.},
  journal = {Royal Society Open Science},
  title   = {Improved community detection in weighted bipartite networks},
  year    = {2016},
  number  = {1},
  pages   = {140536},
  volume  = {3},
}

@Article{Leprieur2014,
  author  = {Leprieur, F. and Oikonomou, A.},
  journal = {Journal of Biogeography},
  title   = {{The need for richness-independent measures of turnover when delineating biogeographical regions}},
  year    = {2014},
  pages   = {417--420},
  volume  = {41},
}

@Article{Dapporto2013,
  author  = {Dapporto, L., Ramazzotti, M., Fattorini, S., Talavera, G., Vila, R., Dennis, R. L. H.},
  journal = {Ecography},
  title   = {recluster: an unbiased clustering procedure for beta-diversity turnover},
  year    = {2013},
  pages   = {1070--1075},
}

@Article{Leroy2019,
  author  = {Leroy, B. and Dias, M. S. and Giraud, E. and Hugueny, B. and Jézéquel, C. and Leprieur, F. and Oberdorff, T. and Tedesco, P. A.},
  journal = {Journal of Biogeography},
  title   = {Global biogeographical regions of freshwater fish species},
  year    = {2019},
  pages   = {2407--2419},
}


@Article{Dapporto2015,
  author  = {Dapporto, L. and Ciolli, G. and Dennis, R. L. H. and Fox, R. and Shreeve, T. G.},
  journal = {Methods in Ecology and Evolution},
  title   = {A new procedure for extrapolating turnover regionalization at mid-small spatial scales, tested on British butterflies},
  year    = {2015},
  number  = {11},
  pages   = {1287--1297},
  volume  = {6},
}

@Article{Denelle2020,
  author  = {Denelle, P. and Violle, C. and Munoz, F.},
  title   = {Generalist plants are more competitive and more functionally similar to each other than specialist plants: insights from network analyses},
  journal = {Journal of Biogeography},
  year    = {2020},
  volume  = {47},
  pages   = {1922–1933},
}

@Article{Rousseeuw1987,
  author  = {Rousseeuw, P. J.},
  title   = {Silhouettes: {A} graphical aid to the interpretation and validation of cluster analysis},
  journal = {Journal of Computational and Applied Mathematics},
  year    = {1987},
  volume  = {20},
  pages   = {53--65},
}

@Article{Caceres2009,
  author  = {De Cáceres, M and Legendre, P.},
  title   = {Associations between species and groups of sites: indices and statistical inference},
  journal = {Ecology},
  year    = {2009},
  volume  = {90},
  number  = {12},
  pages   = {3566--3574},
}

@Article{Fattorini2015,
  author  = {Fattorini, S},
  title   = {On the concept of chorotype},
  journal = {Journal of Biogeography},
  year    = {2015},
  volume  = {42},
  number  = {11},
  pages   = {2246--2251},
}

@Article{BaroniUrbani1978,
  author  = {Baroni Urbani, C. and Ruffo, S. and Vigna Taglianti, A.},
  title   = {Materiali per una biogeografia italiana fondata su alcuni generi di coleotteri Cicindelidi, Carabidi e Crisomelidi},
  journal = {Memorie della Società Entomologica Italiana},
  year    = {1978},
  volume  = {56},
  pages   = {35--92},
}

@Comment{jabref-meta: databaseType:bibtex;}
