Who is Who in Phylogenetic Networks

Publications related to 'consensus'   Order by:   Type | Year

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abstract-network consensus distance-between-networks evaluation from-rooted-trees from-sequences from-splits from-trees from-unrooted-trees galled-tree hybridization median-network NeighborNet parsimony phylogenetic-network phylogeny Program-Beagle Program-Spectronet Program-SplitsTree Program-SPNet recombination reconstruction split split-decomposition split-network survey visualization

2007

1 Olivier Gauthier and François-Joseph Lapointe. Seeing the Trees for the Network: Consensus, Information Content, and Superphylogenies. In Systematic Biology, Vol. 56(2):345-355, 2007. Keywords: consensus. Note: http://dx.doi.org/10.1080/10635150701286549.         Toggle abstract [No abstract available] 2 Daniel H. Huson. Split networks and Reticulate Networks. In Olivier Gascuel and Mike Steel editors, Reconstructing Evolution, New Mathematical and Computational Advances, Pages 247-276, Oxford University Press, 2007. Keywords: abstract network, consensus, from rooted trees, from sequences, from splits, from unrooted trees, galled tree, hybridization, phylogenetic network, phylogeny, Program Beagle, Program Spectronet, Program SplitsTree, Program SPNet, recombination, reconstruction, split network, survey. Note: similar to http://www-ab.informatik.uni-tuebingen.de/research/phylonets/GCB2006.pdf.         3 Bastienne Vriesendorp. Phylogenenetworks, exploring reticulate evolution and its consequences for phylogenetic reconstruction. PhD thesis, Wageningen University, The Netherlands, 2007. Keywords: consensus, distance between networks, evaluation, hybridization, median network, NeighborNet, parsimony, phylogenetic network, phylogeny, Program SplitsTree, split decomposition, survey. Note: http://library.wur.nl/wda/dissertations/dis4239.pdf.

2006

4 Barbara R. Holland, Lars S. Jermiin and Vincent Moulton. Improved Consensus Network Techniques for Genome-Scale Phylogeny. In Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005 (SMBE'05), Vol. 23(5):848-855 of MBE, 2006. Keywords: consensus. Note: http://dx.doi.org/10.1093/molbev/msj061.

2005

5 Barbara R. Holland, Frédéric Delsuc and Vincent Moulton. Visualizing Conflicting Evolutionary Hypotheses in Large Collections of Trees: Using Consensus Networks to Study the Origins of Placentals and Hexapods. In Systematic Biology, Vol. 54(1):66-76, 2005. Keywords: consensus. Note: http://hal-sde.archives-ouvertes.fr/halsde-00193050/fr/.         Toggle abstract "Many phylogenetic methods produce large collections of trees as opposed to a single tree, which allows the exploration of support for various evolutionary hypotheses. However, to be useful, the information contained in large collections of trees should be summarized; frequently this is achieved by constructing a consensus tree. Consensus trees display only those signals that are present in a large proportion of the trees. However, by their very nature consensus trees require that any conflicts between the trees are necessarily disregarded. We present a method that extends the notion of consensus trees to allow the visualization of conflicting hypotheses in a consensus network. We demonstrate the utility of this method in highlighting differences amongst maximum likelihood bootstrap values and Bayesian posterior probabilities in the placental mammal phylogeny, and also in comparing the phylogenetic signal contained in amino acid versus nucleotide characters for hexapod monophyly. Copyright © Society of Systematic Biologists." 6 Martyn Kennedy, Barbara R. Holland, Russel D. Gray and Hamish G. Spencer. Untangling Long Branches: Identifying Conflicting Phylogenetic Signals Using Spectral Analysis, Neighbor-Net, and Consensus Networks. In Systematic Biology, Vol. 54(4):620-633, 2005. Keywords: abstract network, consensus, NeighborNet, phylogenetic network, phylogeny. Note: http://awcmee.massey.ac.nz/people/bholland/pdf/Kennedy_etal_2005.pdf.

2004

7 Barbara R. Holland, Katharina Huber, Vincent Moulton and Peter J. Lockhart. Using consensus networks to visualize contradictory evidence for species phylogeny. In MBE, Vol. 21(7):1459-1461, 2004. Keywords: consensus, from trees, phylogenetic network, phylogeny, split, visualization. Note: http://dx.doi.org/10.1093/molbev/msh145.         Toggle abstract Building species phylogenies from genome data requires the evaluation of phylogenetic evidence from independent gene loci. We propose an approach to do this using consensus networks. We compare gene trees for eight yeast genomes and show that consensus networks have potential for helping to visualize contradictory evidence for species phylogenies.

2003

8 Barbara R. Holland and Vincent Moulton. Consensus networks: A method for visualising incompatibilities in collections of trees. In WABI03, Vol. 2812:165-176 of LNCS, springer, 2003. Keywords: consensus. Note: http://dx.doi.org/10.1093/molbev/msj061.