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Items: 1 to 20 of 148

1.

Uncovering hidden phylogenetic consensus in large data sets.

Pattengale ND, Aberer AJ, Swenson KM, Stamatakis A, Moret BM.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Jul-Aug;8(4):902-11. doi: 10.1109/TCBB.2011.28.

PMID:
21301032
2.

Pruning rogue taxa improves phylogenetic accuracy: an efficient algorithm and webservice.

Aberer AJ, Krompass D, Stamatakis A.

Syst Biol. 2013 Jan 1;62(1):162-6. doi: 10.1093/sysbio/sys078. Epub 2012 Sep 6.

3.

Genetic algorithm for large-scale maximum parsimony phylogenetic analysis of proteins.

Hill T, Lundgren A, Fredriksson R, Schiƶth HB.

Biochim Biophys Acta. 2005 Aug 30;1725(1):19-29.

PMID:
15990235
4.

Phylogenetic supermatrix analysis of GenBank sequences from 2228 papilionoid legumes.

McMahon MM, Sanderson MJ.

Syst Biol. 2006 Oct;55(5):818-36.

PMID:
17060202
5.

Sparse supermatrices for phylogenetic inference: taxonomy, alignment, rogue taxa, and the phylogeny of living turtles.

Thomson RC, Shaffer HB.

Syst Biol. 2010 Jan;59(1):42-58. doi: 10.1093/sysbio/syp075. Epub 2009 Nov 11.

PMID:
20525619
6.

Polyhedral geometry of phylogenetic rogue taxa.

Cueto MA, Matsen FA.

Bull Math Biol. 2011 Jun;73(6):1202-26. doi: 10.1007/s11538-010-9556-x. Epub 2010 Jul 17.

PMID:
20640527
7.
8.

Refining phylogenetic trees given additional data: an algorithm based on parsimony.

Wu T, Moulton V, Steel M.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Jan-Mar;6(1):118-25. doi: 10.1109/TCBB.2008.100.

PMID:
19179705
9.

A practical algorithm for reconstructing level-1 phylogenetic networks.

Huber KT, van Iersel L, Kelk S, Suchecki R.

IEEE/ACM Trans Comput Biol Bioinform. 2011 May-Jun;8(3):635-49. doi: 10.1109/TCBB.2010.17.

PMID:
21393651
10.

Robustness of topological supertree methods for reconciling dense incompatible data.

Willson SJ.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Jan-Mar;6(1):62-75. doi: 10.1109/TCBB.2008.51.

PMID:
19179699
11.

Combining data sets with different phylogenetic histories.

Wiens JJ.

Syst Biol. 1998 Dec;47(4):568-81.

PMID:
12066302
12.

Improved parameterized complexity of the maximum agreement subtree and maximum compatible tree problems.

Berry V, Nicolas F.

IEEE/ACM Trans Comput Biol Bioinform. 2006 Jul-Sep;3(3):289-302.

PMID:
17048466
13.

Metrics on multilabeled trees: interrelationships and diameter bounds.

Huber KT, Spillner A, Suchecki R, Moulton V.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Jul-Aug;8(4):1029-40. doi: 10.1109/TCBB.2010.122.

PMID:
21116046
14.

Big cat phylogenies, consensus trees, and computational thinking.

Sul SJ, Williams TL.

J Comput Biol. 2011 Jul;18(7):895-906. doi: 10.1089/cmb.2010.0199. Epub 2011 May 12.

PMID:
21563975
15.

Using median sets for inferring phylogenetic trees.

Bernt M, Merkle D, Middendorf M.

Bioinformatics. 2007 Jan 15;23(2):e129-35.

16.

MetaPIGA v2.0: maximum likelihood large phylogeny estimation using the metapopulation genetic algorithm and other stochastic heuristics.

Helaers R, Milinkovitch MC.

BMC Bioinformatics. 2010 Jul 15;11:379. doi: 10.1186/1471-2105-11-379.

17.

Fast computation of distance estimators.

Elias I, Lagergren J.

BMC Bioinformatics. 2007 Mar 13;8:89.

18.

Obtaining maximal concatenated phylogenetic data sets from large sequence databases.

Sanderson MJ, Driskell AC, Ree RH, Eulenstein O, Langley S.

Mol Biol Evol. 2003 Jul;20(7):1036-42. Epub 2003 May 30.

19.

Consensus properties for the deep coalescence problem and their application for scalable tree search.

Lin HT, Burleigh JG, Eulenstein O.

BMC Bioinformatics. 2012 Jun 25;13 Suppl 10:S12. doi: 10.1186/1471-2105-13-S10-S12.

20.

Genetic algorithms and parallel processing in maximum-likelihood phylogeny inference.

Brauer MJ, Holder MT, Dries LA, Zwickl DJ, Lewis PO, Hillis DM.

Mol Biol Evol. 2002 Oct;19(10):1717-26.

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