Publications related to 'characterization'
 
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Arvind Gupta, Ján Manuch, Xiaohong Zhao and Ladislav Stacho. Characterization of the existence of galled-tree networks. In JBCB, Vol. 4(6):1309-1328, 2006.  
Keywords: characterization, galled tree.
Note: http://www.pims.math.ca/~manuch/papers/characterization_JBCB2006.pdf.
       

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Yun S. Song. A Concise Necessary and Sufficient Condition for the Existence of a Galled-Tree. In TCBB, Vol. 3(2):186-191, 2006.  
Keywords: characterization, from sequences, galled tree, phylogenetic network, phylogeny, polynomial, reconstruction.
Note: http://www.eecs.berkeley.edu/~yss/Pub/nasc4gall.pdf.
       

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Stefan Grünewald, Katharina Huber, Vincent Moulton, Charles Semple and Andreas Spillner. Characterizing weak compatibility in terms of weighted quartets. In Advances in Applied Mathematics, Vol. 42(3):329-341, 2009.  
Keywords: abstract network, characterization, from quartets, split network, weak hierarchy.
Note: http://www.math.canterbury.ac.nz/~c.semple/papers/GHMSS08.pdf, slides at http://www.lirmm.fr/miep08/slides/12_02_huber.pdf.
       

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Philippe Gambette and Katharina Huber. On Encodings of Phylogenetic Networks of Bounded Level. In JOMB, Vol. 65(1):157-180, 2012.  
Keywords: characterization, explicit network, from clusters, from rooted trees, from triplets, galled tree, identifiability, level k phylogenetic network, phylogenetic network, uniqueness, weak hierarchy.
Note: http://hal.archives-ouvertes.fr/hal-00609130/en/.
       
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Ethan Cecchetti. Orientability of Phylogenetic Network Graphs. In Rose Hulman Undergraduate Math Journal, Vol. 8(2), 2007.  
Keywords: characterization, explicit network, phylogenetic network.
Note: http://www.rose-hulman.edu/mathjournal/v8n2.php.
       

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Peter J. Humphries, Simone Linz and Charles Semple. On the complexity of computing the temporal hybridization number for two phylogenies. In DAM, Vol. 161:871-880, 2013.  
Keywords: agreement forest, APX hard, characterization, from rooted trees, hybridization, NP complete, phylogenetic network, phylogeny, reconstruction, time consistent network.
Note: http://ab.inf.uni-tuebingen.de/people/linz/publications/TAFapx.pdf.
       
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Peter J. Humphries, Simone Linz and Charles Semple. Cherry picking: a characterization of the temporal hybridization number for a set of phylogenies. In BMB, Vol. 75(10):1879-1890, 2013.  
Keywords: characterization, from rooted trees, hybridization, NP complete, phylogenetic network, phylogeny, reconstruction, time consistent network.
Note: http://ab.inf.uni-tuebingen.de/people/linz/publications/CPSpaper.pdf.
       
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Louxin Zhang. On Tree-Based Phylogenetic Networks. In JCB, Vol. 23(7):553-565, 2016.  
Keywords: characterization, explicit network, phylogenetic network, phylogeny, tree-based network.
Note: http://arxiv.org/abs/1509.01663.
       

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Monika Balvociute, David Bryant and Andreas Spillner. When can splits be drawn in the plane? In SIAM Journal on Discrete Mathematics, Vol. 31(2):839-856, 2017.  
Keywords: abstract network, characterization, flat, phylogenetic network, planar, split, split network.
Note: http://arxiv.org/abs/1509.06104v1.
       

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Laura Jetten and Leo van Iersel. Nonbinary tree-based phylogenetic networks. In TCBB, 2016.  
Keywords: characterization, explicit network, phylogenetic network, phylogeny, tree-based network.
Note: http://arxiv.org/abs/1601.04974.
       

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Charles Semple. Phylogenetic Networks with Every Embedded Phylogenetic Tree a Base Tree. In BMB, Vol. 78(1):132-137, 2016.  
Keywords: characterization, explicit network, phylogenetic network, phylogeny, tree child network, tree-based network.
Note: http://www.math.canterbury.ac.nz/~c.semple/papers/S15.pdf.
       

InProceedings
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Hans-Jürgen Bandelt and Andreas W. M. Dress. A relational approach to split decomposition. In H.-H. Bock, W. Lenski and M. M. Richter editors, Information Systems and Data Analysis, Proceedings of the 17th Annual Conference of the Gesellschaft Für Klassifikation (GFKL93), Vol. 42:123-131 of Studies in Classification, Data Analysis, and Knowledge Organization, springer, 1994.  
Keywords: characterization, from quartets, phylogenetic network, weakly compatible.
       

PhdThesis
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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
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Dan Gusfield. On the Full-Decomposition Optimality Conjecture for Phylogenetic Networks. 2005.  
Keywords: characterization, explicit network, from sequences, phylogenetic network, reconstruction.
Note: UC Davis Computer Science Technical Report CSE-2005, http://wwwcsif.cs.ucdavis.edu/~gusfield/fullydecomp.pdf.
       

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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.
       

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Laura Jetten. Characterising tree-based phylogenetic networks. Bachelor thesis, 2015.  
Keywords: characterization, explicit network, phylogenetic network, phylogeny, tree-based network.
Note: http://resolver.tudelft.nl/uuid:fda2636d-0ed5-4dd2-bacf-8abbbad8994e.
       

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Andrew R. Francis, Charles Semple and Mike Steel. New Characterisations of Tree-Based Networks and Proximity Measures. 2016.  
Keywords: characterization, explicit network, phylogenetic network, phylogeny, time consistent network, tree-based network.
Note: https://arxiv.org/abs/1611.04225.
       

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Andrew R. Francis, Katharina Huber and Vincent Moulton. Tree-based unrooted phylogenetic networks. 2017.  
Keywords: characterization, explicit network, NP complete, phylogenetic network, phylogeny, tree-based network.
Note: https://arxiv.org/abs/1704.02062.
       

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Joan Carles Pons, Charles Semple and Mike Steel. Nonbinary tree-based networks: characterisations, metrics, and support trees. 2017.  
Keywords: characterization, explicit network, from network, phylogenetic network, phylogeny.
Note: https://arxiv.org/abs/1710.07836.