[This corrects the article DOI: 10.1371/journal.pcbi.1007732.].

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PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph.

PLoS Comput Biol

March 2020

LABGeM, Génomique Métabolique, CEA, Genoscope, Institut François Jacob, Université d'Évry, Université Paris-Saclay, CNRS, Evry, France.

The use of comparative genomics for functional, evolutionary, and epidemiological studies requires methods to classify gene families in terms of occurrence in a given species. These methods usually lack multivariate statistical models to infer the partitions and the optimal number of classes and don't account for genome organization. We introduce a graph structure to model pangenomes in which nodes represent gene families and edges represent genomic neighborhood.

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