Who is Who in Phylogenetic Networks

Publications related to 'pyramid' : A pyramid over a set X is a set P of clusters of X which contains X, the singletons formed by its elements, and has the following properties: the intersection of two elements of P is either empty or in P there exists an order on X such that each element of P is an interval in this order. A pyramid can be represented by a planar rooted pyramidal representation.   Order by:   Type | Year

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Associated keywords

abstract-network characterization circular-split-system clustering evaluation explicit-network FPT from-clusters from-distances from-triplets hybridization integer-linear-programming lateral-gene-transfer level-k-phylogenetic-network likelihood median-network NeighborNet netting NP-complete parsimony phylogenetic-network phylogeny Program-Arlequin Program-Dendroscope Program-Network Program-Pyramids Program-Reticlad Program-SplitsTree Program-T-REX Program-TCS Program-WeakHierarchies pyramid reconstruction reticulogram software split split-decomposition split-network statistical-parsimony survey visualization weak-hierarchy

Article (Journal)

1 Jean-Christophe Aude, Yolande Diaz-Lazcoz, Jean-Jacques Codani and Jean-Loup Risler. Applications of the Pyramidal Clustering Method to Biological Objects. In CC, Vol. 23(3-4):303-315, 1999. Keywords: from distances, phylogenetic network, phylogeny, Program Pyramids, pyramid, reconstruction, software, visualization. Note: http://dx.doi.org/10.1016/S0097-8485(99)00006-6.         2 Patrice Bertrand and Edwin Diday. A visual representation of the compatibility between an order and a dissimilarity index: the pyramids. In CSQ, Vol. 2:31-42, 1985. Keywords: pyramid.         3 François-Joseph Lapointe. How to account for reticulation events in phylogenetic analysis: A review of distance-based methods. In Journal of Classification, Vol. 17:175-184, 2000. Keywords: abstract network, evaluation, from distances, phylogenetic network, Program Pyramids, Program SplitsTree, Program T REX, pyramid, reconstruction, reticulogram, split network, survey, weak hierarchy. Note: http://dx.doi.org/10.1007/s003570000016.         4 David Posada and Keith A. Crandall. Intraspecific gene genealogies: trees grafting into networks. In TEE, Vol. 16(1):37-45, 2001. Keywords: likelihood, median network, netting, parsimony, phylogenetic network, phylogeny, Program Arlequin, Program SplitsTree, Program T REX, Program TCS, pyramid, reticulogram, split decomposition, statistical parsimony, survey. Note: http://darwin.uvigo.es/download/papers/09.networks01.pdf.

InBook

5 Vladimir Makarenkov, Dmytro Kevorkov and Pierre Legendre. Phylogenetic Network Construction Approaches. In Applied Mycology and Biotechnology, Vol. 6:61-97, 2006. Keywords: from distances, hybridization, lateral gene transfer, median network, NeighborNet, netting, Program Arlequin, Program Network, Program Pyramids, Program Reticlad, Program SplitsTree, Program T REX, Program TCS, Program WeakHierarchies, pyramid, reticulogram, split, split decomposition, split network, survey, weak hierarchy. Note: http://www.labunix.uqam.ca/~makarenv/makarenv/MKL_article.pdf.

PhdThesis

6 Patrice Bertrand. Étude de la représentation pyramidale. PhD thesis, Université de Paris-Dauphine, France, 1986. Keywords: abstract network, pyramid.         7 Philippe Gambette. Méthodes combinatoires de reconstruction de réseaux phylogénétiques. PhD thesis, Université Montpellier 2, France, 2010. Keywords: abstract network, characterization, circular split system, explicit network, FPT, from clusters, from triplets, integer linear programming, level k phylogenetic network, NP complete, phylogenetic network, phylogeny, Program Dendroscope, pyramid, reconstruction, split network, weak hierarchy. Note: http://tel.archives-ouvertes.fr/tel-00608342/en/.

Misc

8 Hans-Jürgen Bandelt. Four-point characterization of the dissimilarity functions obtained from indexed closed weak hierarchies. 1992. Keywords: characterization, clustering, from distances, pyramid, weak hierarchy. Note: Mathematisches Seminar, Universität Hamburg.