title: Theory and practice of ultra-perfection.
abstract: Perfection has been used as a criteria to classify rearrangement scenarios since 2004. However, there is a fundamental bias towards extant species in the original definition: ancestral species are not bound to perfection. Here we develop a new theory of perfection that takes an egalitarian view of species, and we examine the fitness of this theory on several datasets. Supplementary Material is available at www.liebertonline.com/cmb.
authors: INRIA LNE, LIFL, Université Lille 1, Villeneuve d'Ascq, France.
authors: Aïda
authors: A
authors: Ouangraoua
authors: Anne
authors: A
authors: Bergeron
authors: Krister M
authors: KM
authors: Swenson
mesh_terms: D000465:Algorithms; D000818:Animals; D002875:Chromosomes / Q000235:genetics; D003198:Computer Simulation; D004330:Drosophila / Q000235:genetics; D016678:Genome; D006801:Humans; D051379:Mice; D008957:Models, Genetic; D015233:Models, Statistical; D010802:Phylogeny; D051381:Rats; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid