On Defining and Finding Islands of Trees and Mitigating Large Island Bias
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[1] D. Soltis,et al. DISCORDANCE BETWEEN NUCLEAR AND CHLOROPLAST PHYLOGENIES IN THE HEUCHERA GROUP (SAXIFRAGACEAE) , 1995, Evolution; international journal of organic evolution.
[2] Mark Wilkinson,et al. Sphenodontid phylogeny and the problems of multiple trees , 1996 .
[3] C. Brochu,et al. Global lability, regional resolution, and majority-rule consensus bias , 2001, Paleobiology.
[4] M. P. Cummings,et al. PAUP* Phylogenetic analysis using parsimony (*and other methods) Version 4 , 2000 .
[5] D. Ord,et al. PAUP:Phylogenetic analysis using parsi-mony , 1993 .
[6] D. Bryant. The Splits in the Neighborhood of a Tree , 2004 .
[7] Arndt von Haeseler,et al. Consequences of Common Topological Rearrangements for Partition Trees in Phylogenomic Inference , 2015, J. Comput. Biol..
[8] Alain Guénoche,et al. TreeOfTrees Method to Evaluate the Congruence Between Gene Trees , 2011, J. Classif..
[9] Tandy J. Warnow,et al. Statistically based postprocessing of phylogenetic analysis by clustering , 2002, ISMB.
[10] David Penny,et al. Comparing Trees with Pendant Vertices Labelled , 1984 .
[11] F. Jenkins,et al. The Braincase of Eocaecilia micropodia (Lissamphibia, Gymnophiona) and the Origin of Caecilians , 2012, PloS one.
[12] Thibaut Jombart,et al. adegenet: a R package for the multivariate analysis of genetic markers , 2008, Bioinform..
[13] D. W. Taylor,et al. Scutifolium jordanicum gen. et sp. nov. (Cabombaceae), an aquatic fossil plant from the Lower Cretaceous of Jordan, and the relationships of related leaf fossils to living genera. , 2008, American journal of botany.
[14] Pablo A. Goloboff,et al. Calculating SPR distances between trees , 2008, Cladistics : the international journal of the Willi Hennig Society.
[15] D. Robinson,et al. Comparison of phylogenetic trees , 1981 .
[16] IV FrederickA.Matsen,et al. Efficiently Inferring Pairwise Subtree Prune-and-Regraft Adjacencies between Phylogenetic Trees , 2016, ANALCO.
[17] Hans-Hermann Bock,et al. Classification and Related Methods of Data Analysis , 1988 .
[18] Charles Semple,et al. On the Computational Complexity of the Rooted Subtree Prune and Regraft Distance , 2005 .
[19] M. Laurin,et al. Phylogeny of Paleozoic limbed vertebrates reassessed through revision and expansion of the largest published relevant data matrix , 2019, PeerJ.
[20] Klaus Peter Schliep,et al. phangorn: phylogenetic analysis in R , 2010, Bioinform..
[21] Mohammed El-Kebir,et al. Summarizing the solution space in tumor phylogeny inference by multiple consensus trees , 2019, Bioinform..
[22] T. M. Nye. Trees of trees: an approach to comparing multiple alternative phylogenies. , 2008, Systematic biology.
[23] M. Steel,et al. Subtree Transfer Operations and Their Induced Metrics on Evolutionary Trees , 2001 .
[24] Fidel Ramírez,et al. Computing topological parameters of biological networks , 2008, Bioinform..
[25] S. Voigt,et al. A Triassic stem-salamander from Kyrgyzstan and the origin of salamanders , 2020, Proceedings of the National Academy of Sciences.
[26] W. H. Day,et al. A computationally efficient approximation to the nearest neighbor interchange metric , 1984 .
[27] M. Wilkinson. Common Cladistic Information and its Consensus Representation: Reduced Adams and Reduced Cladistic Consensus Trees and Profiles , 1994 .
[28] Ichael,et al. Analysis of Character Correlations Among Wood Decay Mechanisms , Mating Systems , and Substrate Ranges in Homobasidiomycetes , 2001 .
[29] B. Mohr,et al. Jaguariba wiersemana gen. nov. et sp. nov., an Early Cretaceous member of crown group Nymphaeales (Nymphaeaceae) from northern Gondwana , 2013 .
[30] H. Jeffreys. A Treatise on Probability , 1922, Nature.
[31] Vladimir Makarenkov,et al. A new fast method for inferring multiple consensus trees using k-medoids , 2018, BMC Evolutionary Biology.
[32] J. Huelsenbeck,et al. Efficiency of Markov chain Monte Carlo tree proposals in Bayesian phylogenetics. , 2008, Systematic biology.
[33] K. Nixon,et al. ON CONSENSUS, COLLAPSIBILITY, AND CLADE CONCORDANCE , 1996, Cladistics : the international journal of the Willi Hennig Society.
[34] Vincent Berry,et al. Multipolar consensus for phylogenetic trees. , 2006, Systematic biology.
[35] S. Graham,et al. Phylogenetic congruence and discordance among one morphological and three molecular data sets from Pontederiaceae. , 1998, Systematic biology.
[36] Michael P. Cummings,et al. PAUP* [Phylogenetic Analysis Using Parsimony (and Other Methods)] , 2004 .
[37] Michael J. Sharkey,et al. Weighted compromise trees: a method to summarize competing phylogenetic hypotheses , 2013 .
[38] R Core Team,et al. R: A language and environment for statistical computing. , 2014 .
[39] M. Coates,et al. Dates, nodes and character conflict: Addressing the Lissamphibian origin problem , 2007 .
[40] Mark Wilkinson,et al. Majority-rule supertrees. , 2007, Systematic biology.
[41] F. James Rohlf,et al. Taxonomic Congruence in the Leptopodomorpha Re-examined , 1981 .
[42] Maxim Teslenko,et al. MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space , 2012, Systematic biology.
[43] M. Steel,et al. Impacts of Terraces on Phylogenetic Inference. , 2014, Systematic biology.
[44] Panos M. Pardalos,et al. Discrete Mathematical Problems with Medical Applications , 2000 .
[45] A. Huttenlocker,et al. Stem caecilian from the Triassic of Colorado sheds light on the origins of Lissamphibia , 2017, Proceedings of the National Academy of Sciences.
[46] D. Maddison. The discovery and importance of multiple islands of most , 1991 .
[47] Xin He,et al. On computing the nearest neighbor interchange distance , 1999, Discrete Mathematical Problems with Medical Applications.
[48] P. Shannon,et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.
[49] Alexei J Drummond,et al. Guided tree topology proposals for Bayesian phylogenetic inference. , 2012, Systematic biology.
[50] J. Palmer,et al. Chloroplast DNA systematics: a review of methods and data analysis , 1994 .
[51] Layla Oesper,et al. A Consensus Approach to Infer Tumor Evolutionary Histories , 2018, BCB.
[52] Alain Guénoche. Multiple consensus trees: a method to separate divergent genes , 2012, BMC Bioinformatics.
[53] G. Gunnell,et al. 33 million year old Myotis (Chiroptera, Vespertilionidae) and the rapid global radiation of modern bats , 2017, PloS one.
[54] Michael J. Sharkey,et al. Majority Does Not Rule: The Trouble with Majority‐Rule Consensus Trees , 2001, Cladistics : the international journal of the Willi Hennig Society.
[55] J. Palmer,et al. A parsimony analysis of the Asteridae sensu lato based on rbcL sequences. , 1993 .
[56] Mike Steel,et al. Terraces in Phylogenetic Tree Space , 2011, Science.