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Consistency of the neighbor-net algorithm.

Bryant D, Moulton V, Spillner A.

Algorithms Mol Biol. 2007 Jun 28;2:8.PMID: 17597551 [PubMed]Related articlesFree article

Neighbor-joining uses the optimal weight for net divergence.

Charleston MA, Hendy MD, Penny D.

Mol Phylogenet Evol. 1993 Mar;2(1):6-12.PMID: 8081548 [PubMed - indexed for MEDLINE]Related articles

Consistency of topological moves based on the balanced minimum evolution principle of phylogenetic inference.

Bordewich M, Gascuel O, Huber KT, Moulton V.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Jan-Mar;6(1):110-7.PMID: 19179704 [PubMed - indexed for MEDLINE]Related articles

QNet: an agglomerative method for the construction of phylogenetic networks from weighted quartets.

Grünewald S, Forslund K, Dress A, Moulton V.

Mol Biol Evol. 2007 Feb;24(2):532-8. Epub 2006 Nov 21.PMID: 17119010 [PubMed - indexed for MEDLINE]Related articlesFree article

A decomposition theory for phylogenetic networks and incompatible characters.

Gusfield D, Bansal V, Bafna V, Song YS.

J Comput Biol. 2007 Dec;14(10):1247-72.PMID: 18047426 [PubMed - indexed for MEDLINE]Related articlesFree article

Performance comparison between k-tuple distance and four model-based distances in phylogenetic tree reconstruction.

Yang K, Zhang L.

Nucleic Acids Res. 2008 Mar;36(5):e33. Epub 2008 Feb 22.PMID: 18296485 [PubMed - indexed for MEDLINE]Related articlesFree article

What if I don't have a tree? Split decomposition and related models.

Huson DH.

Curr Protoc Bioinformatics. 2003 May;Chapter 6:Unit 6.7.PMID: 18428706 [PubMed - indexed for MEDLINE]Related articles

A comparison of phylogenetic network methods using computer simulation.

Woolley SM, Posada D, Crandall KA.

PLoS One. 2008 Apr 9;3(4):e1913.PMID: 18398452 [PubMed - indexed for MEDLINE]Related articlesFree article

Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?

Hartmann S, Vision TJ.

BMC Evol Biol. 2008 Mar 26;8:95.PMID: 18366758 [PubMed - indexed for MEDLINE]Related articlesFree article

Minimum evolution using ordinary least-squares is less robust than neighbor-joining.

Willson SJ.

Bull Math Biol. 2005 Mar;67(2):261-79.PMID: 15710181 [PubMed - indexed for MEDLINE]Related articles

Getting a tree fast: Neighbor Joining, FastME, and distance-based methods.

Desper R, Gascuel O.

Curr Protoc Bioinformatics. 2006 Oct;Chapter 6:Unit 6.3.PMID: 18428768 [PubMed - indexed for MEDLINE]Related articles

The NET-HMM approach: phylogenetic network inference by combining maximum likelihood and Hidden Markov Models.

Snir S, Tuller T.

J Bioinform Comput Biol. 2009 Aug;7(4):625-44.PMID: 19634195 [PubMed - indexed for MEDLINE]Related articles

Phylogeny.fr: robust phylogenetic analysis for the non-specialist.

Dereeper A, Guignon V, Blanc G, Audic S, Buffet S, Chevenet F, Dufayard JF, Guindon S, Lefort V, Lescot M, Claverie JM, Gascuel O.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W465-9. Epub 2008 Apr 19.PMID: 18424797 [PubMed - indexed for MEDLINE]Related articlesFree article

On the optimality of the neighbor-joining algorithm.

Eickmeyer K, Huggins P, Pachter L, Yoshida R.

Algorithms Mol Biol. 2008 Apr 30;3:5.PMID: 18447942 [PubMed]Related articlesFree article

Evolution of naturally occurring 5'non-coding region variants of Hepatitis C virus in human populations of the South American region.

Moratorio G, Martínez M, Gutiérrez MF, González K, Colina R, López-Tort F, López L, Recarey R, Schijman AG, Moreno MP, García-Aguirre L, Manascero AR, Cristina J.

Virol J. 2007 Aug 2;4:79.PMID: 17683527 [PubMed - indexed for MEDLINE]Related articlesFree article

Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom.

Kuramae EE, Robert V, Echavarri-Erasun C, Boekhout T.

BMC Evol Biol. 2007 Aug 9;7:134.PMID: 17688684 [PubMed - indexed for MEDLINE]Related articlesFree article

Computing galled networks from real data.

Huson DH, Rupp R, Berry V, Gambette P, Paul C.

Bioinformatics. 2009 Jun 15;25(12):i85-93.PMID: 19478021 [PubMed - indexed for MEDLINE]Related articlesFree article

Fast NJ-like algorithms to deal with incomplete distance matrices.

Criscuolo A, Gascuel O.

BMC Bioinformatics. 2008 Mar 26;9:166.PMID: 18366787 [PubMed - indexed for MEDLINE]Related articlesFree article

Exploring contradictory phylogenetic relationships in yeasts.

Wu Q, James SA, Roberts IN, Moulton V, Huber KT.

FEMS Yeast Res. 2008 Jun;8(4):641-50. Epub 2008 Mar 24.PMID: 18371172 [PubMed - indexed for MEDLINE]Related articles

Phylogenetic inference with weighted codon evolutionary distances.

Criscuolo A, Michel CJ.

J Mol Evol. 2009 Apr;68(4):377-92. Epub 2009 Mar 24.PMID: 19308635 [PubMed - indexed for MEDLINE]Related articles