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Volumn 64, Issue 2, 2015, Pages 205-214

Practical performance of tree comparison metrics

Author keywords

Phylogenetics; Tree comparison; Tree distance metrics

Indexed keywords

MAMMALIA;

EID: 84927675668     PISSN: 10635157     EISSN: 1076836X     Source Type: Journal    
DOI: 10.1093/sysbio/syu085     Document Type: Article
Times cited : (69)

References (27)
  • 1
    • 0347512294 scopus 로고    scopus 로고
    • Subtree transfer operations and their induced metrics on evolutionary trees
    • Allen B.L., Steel M. 2001. Subtree transfer operations and their induced metrics on evolutionary trees. Ann. Combinat. 5:1-15.
    • (2001) Ann. Combinat. , vol.5 , pp. 1-15
    • Allen, B.L.1    Steel, M.2
  • 2
    • 13844266486 scopus 로고    scopus 로고
    • On the computational complexity of the rooted subtree prune and regraft distance
    • Bordewich M., Semple C. 2004. On the computational complexity of the rooted subtree prune and regraft distance. Ann. Combinat. 8:409-423.
    • (2004) Ann. Combinat. , vol.8 , pp. 409-423
    • Bordewich, M.1    Semple, C.2
  • 3
    • 0030311519 scopus 로고    scopus 로고
    • The triples distance for rooted bifurcating phylogenetic trees
    • Critchlow D.E., Pearl D.K., Qian C. 1996. The triples distance for rooted bifurcating phylogenetic trees. Syst. Biol. 45:323-334.
    • (1996) Syst. Biol. , vol.45 , pp. 323-334
    • Critchlow, D.E.1    Pearl, D.K.2    Qian, C.3
  • 4
    • 84864453108 scopus 로고    scopus 로고
    • jModelTest 2: More models, new heuristics and parallel computing
    • Darriba D., Taboada G.L., Doallo R., Posada D. 2012. jModelTest 2: More models, new heuristics and parallel computing. Nat. Methods. 9:772.
    • (2012) Nat. Methods. , vol.9 , pp. 772
    • Darriba, D.1    Taboada, G.L.2    Doallo, R.3    Posada, D.4
  • 5
    • 84959752542 scopus 로고
    • Comparison of undirected phylogenetic trees based on subtrees of four evolutionary units
    • Estabrook G.F., McMorris F.R., Meacham C.A. 1985. Comparison of undirected phylogenetic trees based on subtrees of four evolutionary units. Syst. Zool. 34:193-200.
    • (1985) Syst. Zool. , vol.34 , pp. 193-200
    • Estabrook, G.F.1    McMorris, F.R.2    Meacham, C.A.3
  • 7
    • 77953679272 scopus 로고    scopus 로고
    • Calculating SPR distances between trees
    • Goloboff P.A. 2007. Calculating SPR distances between trees. Cladistics 23:1-7.
    • (2007) Cladistics , vol.23 , pp. 1-7
    • Goloboff, P.A.1
  • 8
    • 0001904904 scopus 로고
    • On the assessment and comparison of classifications
    • Tomassine R. editor Le Chesnay, France: INRIA . P.
    • Gordon A.D. 1980. On the assessment and comparison of classifications. In: Tomassine R. editor. Analyse de donnes et informatique, Le Chesnay, France: INRIA. P. 149-160.
    • (1980) Analyse de Donnes Et Informatique , pp. 149-160
    • Gordon, A.D.1
  • 9
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood
    • Guindon S., Gascuel O. 2003. A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood. Syst. Biol. 52:696-704.
    • (2003) Syst. Biol. , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 11
    • 0020744702 scopus 로고
    • Properties of a neutral allele model with intragenic recombination
    • Hudson R.R. 1983. Properties of a neutral allele model with intragenic recombination. Theor. Pop. Biol. 23:183-201.
    • (1983) Theor. Pop. Biol. , vol.23 , pp. 183-201
    • Hudson, R.R.1
  • 12
    • 0036184745 scopus 로고    scopus 로고
    • Generating samples under a Wright-Fisher neutral model of genetic variation
    • Hudson R.R. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics 18:337-338.
    • (2002) Bioinformatics , vol.18 , pp. 337-338
    • Hudson, R.R.1
  • 14
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
    • (1980) J. Mol. Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 15
    • 0002556819 scopus 로고
    • On the genealogy of large populations
    • Kingman J.F.C. 1982. On the genealogy of large populations. J. Applied. Prob. 19A:27-43.
    • (1982) J. Applied. Prob. , vol.19 A , pp. 27-43
    • Kingman, J.F.C.1
  • 16
    • 0028177080 scopus 로고
    • A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates
    • Kuhner M.K. Felsenstein J. 1994. A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates. Mol. Biol. Evol. 11:459-468.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 459-468
    • Kuhner, M.K.1    Felsenstein, J.2
  • 17
    • 0346499245 scopus 로고    scopus 로고
    • Twist-rotation transformations of binary trees and arithmetic expressions
    • Li M., Zhang L.X. 1999. Twist-rotation transformations of binary trees and arithmetic expressions. J. Algorith. 32:155-166.
    • (1999) J. Algorith. , vol.32 , pp. 155-166
    • Li, M.1    Zhang, L.X.2
  • 18
    • 30344473638 scopus 로고    scopus 로고
    • A novel algorithm and web-based tool for comparing two alternative phylogenetic trees
    • Nye, T.M.W., Lio P., Gilks W.R. 2006. A novel algorithm and web-based tool for comparing two alternative phylogenetic trees. Bioinformatics 22:117-119.
    • (2006) Bioinformatics , vol.22 , pp. 117-119
    • Nye, T.M.W.1    Lio, P.2    Gilks, W.R.3
  • 19
    • 0019951634 scopus 로고
    • Testing the theory of evolution by comparing phylogenetic trees constructed from five different protein sequences
    • Penny D., Foulds L.R., Hendy M.D. 1982. Testing the theory of evolution by comparing phylogenetic trees constructed from five different protein sequences. Nature 297:197-200.
    • (1982) Nature , vol.297 , pp. 197-200
    • Penny, D.1    Foulds, L.R.2    Hendy, M.D.3
  • 20
    • 39749111875 scopus 로고    scopus 로고
    • Orthomam: A database of orthologous genomic markers for placental mammal phylogenetics
    • Ranwez V., Delsuc F., Ranwez S., Belkhir K., Tilak M., Douzery E. 2007. Orthomam: A database of orthologous genomic markers for placental mammal phylogenetics. BmC Evol. Biol. 7:241.
    • (2007) BmC Evol. Biol. , vol.7 , pp. 241
    • Ranwez, V.1    Delsuc, F.2    Ranwez, S.3    Belkhir, K.4    Tilak, M.5    Douzery, E.6
  • 21
    • 0039348203 scopus 로고
    • Comparison of weighted labeled trees
    • Robinson D.F., Foulds L.R. 1979. Comparison of weighted labeled trees. Lect. Note. Math. 748:119-126.
    • (1979) Lect. Note. Math. , vol.748 , pp. 119-126
    • Robinson, D.F.1    Foulds, L.R.2
  • 22
    • 0019424782 scopus 로고
    • Comparison of phylogenetic trees
    • Robinson D.F., Foulds L.R. 1981. Comparison of phylogenetic trees. Math. Biosci. 53:131-147.
    • (1981) Math. Biosci. , vol.53 , pp. 131-147
    • Robinson, D.F.1    Foulds, L.R.2
  • 23
    • 12044252586 scopus 로고    scopus 로고
    • Distributions of tree comparison metrics-some new results
    • Steel M.A., Penny D. 2003. Distributions of tree comparison metrics-some new results. Syst. Biol. 42:126-141.
    • (2003) Syst. Biol. , vol.42 , pp. 126-141
    • Steel, M.A.1    Penny, D.2
  • 25
    • 0001828140 scopus 로고
    • On the comparison of two classifications of the same set of elements
    • Williams W.T., Clifford H.T. 1971. On the comparison of two classifications of the same set of elements. Taxon 20:519-522.
    • (1971) Taxon , vol.20 , pp. 519-522
    • Williams, W.T.1    Clifford, H.T.2
  • 26
    • 12044257838 scopus 로고
    • Statistical properties of the maximum likelihood method of phylogenetic estimation and comparison with distance matrix methods
    • Yang Z. 1994. Statistical properties of the maximum likelihood method of phylogenetic estimation and comparison with distance matrix methods. Syst. Biol. 43:329-342.
    • (1994) Syst. Biol. , vol.43 , pp. 329-342
    • Yang, Z.1
  • 27
    • 0001778604 scopus 로고
    • A mathematical theory of evolution, based on the conclusions of Dr. J. C. Willis, F.R.S
    • Yule G.U. 1924. A mathematical theory of evolution, based on the conclusions of Dr. J. C. Willis, F.R.S. Phil. Trans. Roy. Soc. Lond. B 213:21-87.
    • (1924) Phil. Trans. Roy. Soc. Lond. B , vol.213 , pp. 21-87
    • Yule, G.U.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.