dorsal/arxiv
View SchemaComparison and validation of community structures in complex networks
| Authors | Mika Gustafsson, Anna Lombardi, Michael Hornquist |
|---|---|
| Categories | |
| ArXiv ID | physics/0601057 |
| URL | https://arxiv.org/abs/physics/0601057 |
| DOI | 10.1016/j.physa.2005.12.017 |
Abstract
The issue of partitioning a network into communities has attracted a great deal of attention recently. Most authors seem to equate this issue with the one of finding the maximum value of the modularity, as defined by Newman. Since the problem formulated this way is NP-hard, most effort has gone into the construction of search algorithms, and less to the question of other measures of community structures, similarities between various partitionings and the validation with respect to external information. Here we concentrate on a class of computer generated networks and on three well-studied real networks which constitute a bench-mark for network studies; the karate club, the US college football teams and a gene network of yeast. We utilize some standard ways of clustering data (originally not designed for finding community structures in networks) and show that these classical methods sometimes outperform the newer ones. We discuss various measures of the strength of the modular structure, and show by examples features and drawbacks. Further, we compare different partitions by applying some graph-theoretic concepts of distance, which indicate that one of the quality measures of the degree of modularity corresponds quite well with the distance from the true partition. Finally, we introduce a way to validate the partitionings with respect to external data when the nodes are classified but the network structure is unknown. This is here possible since we know everything of the computer generated networks, as well as the historical answer to how the karate club and the football teams are partitioned in reality. The partitioning of the gene network is validated by use of the Gene Ontology database, where we show that a community in general corresponds to a biological process.
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"abstract": "The issue of partitioning a network into communities has attracted a great\ndeal of attention recently. Most authors seem to equate this issue with the one\nof finding the maximum value of the modularity, as defined by Newman. Since the\nproblem formulated this way is NP-hard, most effort has gone into the\nconstruction of search algorithms, and less to the question of other measures\nof community structures, similarities between various partitionings and the\nvalidation with respect to external information. Here we concentrate on a class\nof computer generated networks and on three well-studied real networks which\nconstitute a bench-mark for network studies; the karate club, the US college\nfootball teams and a gene network of yeast. We utilize some standard ways of\nclustering data (originally not designed for finding community structures in\nnetworks) and show that these classical methods sometimes outperform the newer\nones. We discuss various measures of the strength of the modular structure, and\nshow by examples features and drawbacks. Further, we compare different\npartitions by applying some graph-theoretic concepts of distance, which\nindicate that one of the quality measures of the degree of modularity\ncorresponds quite well with the distance from the true partition. Finally, we\nintroduce a way to validate the partitionings with respect to external data\nwhen the nodes are classified but the network structure is unknown. This is\nhere possible since we know everything of the computer generated networks, as\nwell as the historical answer to how the karate club and the football teams are\npartitioned in reality. The partitioning of the gene network is validated by\nuse of the Gene Ontology database, where we show that a community in general\ncorresponds to a biological process.",
"arxiv_id": "physics/0601057",
"authors": [
"Mika Gustafsson",
"Anna Lombardi",
"Michael Hornquist"
],
"categories": [
"physics.soc-ph",
"physics.bio-ph"
],
"doi": "10.1016/j.physa.2005.12.017",
"title": "Comparison and validation of community structures in complex networks",
"url": "https://arxiv.org/abs/physics/0601057"
},
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