메뉴 건너뛰기




Volumn 5541 LNBI, Issue , 2009, Pages 184-200

How many bootstrap replicates are necessary?

Author keywords

Bootstopping; Bootstrap; Maximum likelihood; Phylogenetic inference; Stopping criterion; Support value

Indexed keywords

BOOTSTOPPING; BOOTSTRAP; PHYLOGENETIC INFERENCE; STOPPING CRITERION; SUPPORT VALUE;

EID: 67650340717     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-02008-7_13     Document Type: Conference Paper
Times cited : (303)

References (33)
  • 1
    • 67650314596 scopus 로고    scopus 로고
    • Andrews, D.W.K., Buchinsky, M.: On the Number of Bootstrap Repetitions for Bootstrap Standard Errors, Confidence Intervals, and Tests. Cowles Foundation Paper 1141R (1997)
    • Andrews, D.W.K., Buchinsky, M.: On the Number of Bootstrap Repetitions for Bootstrap Standard Errors, Confidence Intervals, and Tests. Cowles Foundation Paper 1141R (1997)
  • 2
    • 0001995592 scopus 로고    scopus 로고
    • A Three-Step Method for Choosing the Number of Bootstrap Repetitions
    • Andrews, D.W.K., Buchinsky, M.: A Three-Step Method for Choosing the Number of Bootstrap Repetitions. Econometrica 68(1), 23-51 (2000)
    • (2000) Econometrica , vol.68 , Issue.1 , pp. 23-51
    • Andrews, D.W.K.1    Buchinsky, M.2
  • 3
    • 0012813556 scopus 로고    scopus 로고
    • Evaluation of a Three-step Method for Choosing the Number of Bootstrap Repetitions
    • Andrews, D.W.K., Buchinsky, M.: Evaluation of a Three-step Method for Choosing the Number of Bootstrap Repetitions. J. of Econometrics 103(1-2), 345-386 (2001)
    • (2001) J. of Econometrics , vol.103 , Issue.1-2 , pp. 345-386
    • Andrews, D.W.K.1    Buchinsky, M.2
  • 4
    • 0036021930 scopus 로고    scopus 로고
    • On The Number of Bootstrap Repetitions for BCa Confidence Intervals
    • Andrews, D.W.K., Buchinsky, M.: On The Number of Bootstrap Repetitions for BCa Confidence Intervals. Econometric Theory 18(4), 962-984 (2002)
    • (2002) Econometric Theory , vol.18 , Issue.4 , pp. 962-984
    • Andrews, D.W.K.1    Buchinsky, M.2
  • 5
    • 0032273615 scopus 로고    scopus 로고
    • General Methods for Monitoring Convergence of Iterative Simulations
    • Brooks, S.P., Gelman, A.: General Methods for Monitoring Convergence of Iterative Simulations. J. of Computational and Graphical Statistics 7(4), 434-455 (1998)
    • (1998) J. of Computational and Graphical Statistics , vol.7 , Issue.4 , pp. 434-455
    • Brooks, S.P.1    Gelman, A.2
  • 7
    • 0038040445 scopus 로고    scopus 로고
    • Bootstrap Tests: How Many Bootstraps?
    • Davidson, R., MacKinnon, J.G.: Bootstrap Tests: How Many Bootstraps? Econometric Reviews 19(1), 55-68 (2000)
    • (2000) Econometric Reviews , vol.19 , Issue.1 , pp. 55-68
    • Davidson, R.1    MacKinnon, J.G.2
  • 9
    • 0000461280 scopus 로고
    • Confidence Limits on Phylogenies: An Approach Using the Bootstrap
    • Felsenstein, J.: Confidence Limits on Phylogenies: An Approach Using the Bootstrap. Evolution 39(4), 783-791 (1985)
    • (1985) Evolution , vol.39 , Issue.4 , pp. 783-791
    • Felsenstein, J.1
  • 10
    • 84972492387 scopus 로고
    • Inference from Iterative Simulation using Multiple Sequences
    • Gelman, A., Rubin, D.B.: Inference from Iterative Simulation using Multiple Sequences. Stat. Sci. 7, 457-511 (1992)
    • (1992) Stat. Sci , vol.7 , pp. 457-511
    • Gelman, A.1    Rubin, D.B.2
  • 11
    • 34548414261 scopus 로고    scopus 로고
    • A Nuclear Ribosomal DNA Phylogeny of acer Inferred with Maximum Likelihood, Splits Graphs, and Motif Analyses of 606 Sequences
    • Grimm, G.W., Renner, S.S., Stamatakis, A., Hemleben, V.: A Nuclear Ribosomal DNA Phylogeny of acer Inferred with Maximum Likelihood, Splits Graphs, and Motif Analyses of 606 Sequences. Evolutionary Bioinformatics Online 2, 279-294 (2006)
    • (2006) Evolutionary Bioinformatics Online , vol.2 , pp. 279-294
    • Grimm, G.W.1    Renner, S.S.2    Stamatakis, A.3    Hemleben, V.4
  • 12
    • 0242578620 scopus 로고    scopus 로고
    • A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
    • Guindon, S., Gascuel, O.: A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood. Sys. Biol. 52(5), 696-704 (2003)
    • (2003) Sys. Biol , vol.52 , Issue.5 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 13
    • 48849111904 scopus 로고    scopus 로고
    • Adaptive Choice of the Number of Bootstrap Samples in Large Scale Multiple Testing
    • Guo, W., Peddada, S.: Adaptive Choice of the Number of Bootstrap Samples in Large Scale Multiple Testing. Stat. Appls. in Genetics and Mol. Biol. 7(1) (2008)
    • (2008) Stat. Appls. in Genetics and Mol. Biol , vol.7 , Issue.1
    • Guo, W.1    Peddada, S.2
  • 14
    • 0001368481 scopus 로고
    • On the Number of Bootstrap Simulations Required to Construct a Confidence Interval
    • Hall, P.: On the Number of Bootstrap Simulations Required to Construct a Confidence Interval. The Annals of Statistics 14(4), 1453-1462 (1986)
    • (1986) The Annals of Statistics , vol.14 , Issue.4 , pp. 1453-1462
    • Hall, P.1
  • 15
    • 0026562079 scopus 로고
    • The Number of Replications Needed for Accurate Estimation of the Bootstrap P Value in Phylogenetic Studies
    • Hedges, S.B.: The Number of Replications Needed for Accurate Estimation of the Bootstrap P Value in Phylogenetic Studies. Mol. Biol. Evol. 9(2), 366-369 (1992)
    • (1992) Mol. Biol. Evol , vol.9 , Issue.2 , pp. 366-369
    • Hedges, S.B.1
  • 16
    • 22844442543 scopus 로고    scopus 로고
    • Analysis and Visualization of Tree Space
    • Hillis, D.M., Heath, T.A., John, K.S.: Analysis and Visualization of Tree Space. Sys. Biol. 54(3), 471-482 (2005)
    • (2005) Sys. Biol , vol.54 , Issue.3 , pp. 471-482
    • Hillis, D.M.1    Heath, T.A.2    John, K.S.3
  • 17
    • 0346271739 scopus 로고    scopus 로고
    • Bootstrapping Phylogenies
    • Holmes, S.: Bootstrapping Phylogenies Statistical Science, 18(2), 241-255
    • Statistical Science , vol.18 , Issue.2 , pp. 241-255
    • Holmes, S.1
  • 19
    • 67650330240 scopus 로고    scopus 로고
    • Large-scale Phylogenetic Reconstruction
    • Brown, J.R, ed, CRC Press/Taylor & Francis
    • Moret, B.M.E.: Large-scale Phylogenetic Reconstruction. In: Brown, J.R. (ed.) Comparative Genomics: Basic and Applied Research, pp. 29-48. CRC Press/Taylor & Francis (2007)
    • (2007) Comparative Genomics: Basic and Applied Research , pp. 29-48
    • Moret, B.M.E.1
  • 20
    • 33846880861 scopus 로고    scopus 로고
    • Limitations of Markov Chain Monte Carlo Algorithms for Bayesian Inference of Phylogeny
    • Mossel, E., Vigoda, E.: Limitations of Markov Chain Monte Carlo Algorithms for Bayesian Inference of Phylogeny. Ann. Appl. Probab. 16(4), 2215-2234 (2006)
    • (2006) Ann. Appl. Probab , vol.16 , Issue.4 , pp. 2215-2234
    • Mossel, E.1    Vigoda, E.2
  • 21
    • 67650327035 scopus 로고    scopus 로고
    • Nylander, J.A.A., Wilgenbusch, J.C., Warren, D.L., Swofford, D.L.: AWTY (are we there yet?): A System for Graphical Exploration of MCMC Convergence in Bayesian Phylogenetics. Bioinformatics (2007) (advance access, published August 30)
    • Nylander, J.A.A., Wilgenbusch, J.C., Warren, D.L., Swofford, D.L.: AWTY (are we there yet?): A System for Graphical Exploration of MCMC Convergence in Bayesian Phylogenetics. Bioinformatics (2007) (advance access, published August 30)
  • 23
    • 67650324085 scopus 로고    scopus 로고
    • Rambaut, A, Drummond, A, Tracer MCMC Trace Analysis Tool version 1.3 2004
    • Rambaut, A., Drummond, A.: Tracer MCMC Trace Analysis Tool version 1.3 (2004)
  • 25
    • 0019424782 scopus 로고
    • Comparison of Phylogenetic Trees
    • Robinson, D.F., Foulds, L.R.: Comparison of Phylogenetic Trees. Math. Biosc. 53(1), 131-147 (1981)
    • (1981) Math. Biosc , vol.53 , Issue.1 , pp. 131-147
    • Robinson, D.F.1    Foulds, L.R.2
  • 26
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian Phylogenetic Inference under Mixed Models
    • Ronquist, F., Huelsenbeck, J.P.: MrBayes 3: Bayesian Phylogenetic Inference under Mixed Models. Bioinformatics 19(12), 1572-1574 (2003)
    • (2003) Bioinformatics , vol.19 , Issue.12 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 27
    • 33847240958 scopus 로고    scopus 로고
    • A 567-taxon Data Set for Angiosperms: The Challenges Posed by Bayesian Analyses of Large Data Sets. Int'l
    • Soltis, D.E., Gitzendanner, M.A., Soltis, P.S.: A 567-taxon Data Set for Angiosperms: The Challenges Posed by Bayesian Analyses of Large Data Sets. Int'l J. Plant Sci. 168(2), 137-157 (2007)
    • (2007) J. Plant Sci , vol.168 , Issue.2 , pp. 137-157
    • Soltis, D.E.1    Gitzendanner, M.A.2    Soltis, P.S.3
  • 28
    • 0347532847 scopus 로고    scopus 로고
    • Applying the Bootstrap in Phylogeny Reconstruction
    • Soltis, D.E., Soltis, P.S.: Applying the Bootstrap in Phylogeny Reconstruction. Statist. Sci. 18(2), 256-267 (2003)
    • (2003) Statist. Sci , vol.18 , Issue.2 , pp. 256-267
    • Soltis, D.E.1    Soltis, P.S.2
  • 29
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: Maximum Likelihood-based Phylogenetic Analyses with Thousands of Taxa and Mixed Models
    • Stamatakis, A.: RAxML-VI-HPC: Maximum Likelihood-based Phylogenetic Analyses with Thousands of Taxa and Mixed Models. Bioinformatics 22(21), 2688-2690 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.21 , pp. 2688-2690
    • Stamatakis, A.1
  • 30
    • 50249100595 scopus 로고    scopus 로고
    • A Rapid Bootstrap Algorithm for the RAxML Web Servers
    • in press
    • Stamatakis, A., Hoover, P., Rougemont, J.: A Rapid Bootstrap Algorithm for the RAxML Web Servers. Sys. Biol. (2008) (in press)
    • (2008) Sys. Biol
    • Stamatakis, A.1    Hoover, P.2    Rougemont, J.3
  • 32
    • 34548633617 scopus 로고    scopus 로고
    • New Approaches to Phylogenetic Tree Search and Their Application to Large Numbers of Protein Alignments
    • Whelan, S.: New Approaches to Phylogenetic Tree Search and Their Application to Large Numbers of Protein Alignments. Sys. Biol. 56(5), 727-740 (2007)
    • (2007) Sys. Biol , vol.56 , Issue.5 , pp. 727-740
    • Whelan, S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.