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Volumn 28, Issue 1, 2014, Pages 112-125

High-performance computing selection of models of DNA substitution for multicore clusters

Author keywords

High performance computing (HPC); Message Passing in Java (MPJ); multicore cluster; nucleotide substitution; performance evaluation; phylogeny

Indexed keywords

HIGH-PERFORMANCE COMPUTING; MULTI-CORE CLUSTER; NUCLEOTIDE SUBSTITUTION; PERFORMANCE EVALUATION; PHYLOGENY;

EID: 84892930037     PISSN: 10943420     EISSN: 17412846     Source Type: Journal    
DOI: 10.1177/1094342013495095     Document Type: Article
Times cited : (5)

References (16)
  • 1
    • 0016355478 scopus 로고
    • A new look at the statistical model identification
    • Akaike H. A new look at the statistical model identification. IEEE Transactions on Automatic Control. 1974 ; 19 (6). 716-723
    • (1974) IEEE Transactions on Automatic Control , vol.19 , Issue.6 , pp. 716-723
    • Akaike, H.1
  • 2
    • 0036623259 scopus 로고    scopus 로고
    • Model misspecification and probabilistic tests of topology: Evidence from empirical data sets
    • Buckley TR. Model misspecification and probabilistic tests of topology: evidence from empirical data sets. Systematic Biology. 2002 ; 51: 509-523
    • (2002) Systematic Biology , vol.51 , pp. 509-523
    • Buckley, T.R.1
  • 3
    • 0036213207 scopus 로고    scopus 로고
    • The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support
    • Buckley TR, Cunningham CW. The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support. Molecular Biology and Evolution. 2002 ; 19: 394-405
    • (2002) Molecular Biology and Evolution , vol.19 , pp. 394-405
    • Buckley, T.R.1    Cunningham, C.W.2
  • 4
    • 33845335476 scopus 로고    scopus 로고
    • Finding a maximum likelihood tree is hard
    • Chor B, Tuller T. Finding a maximum likelihood tree is hard. Journal of the ACM. 2006 ; 53 (5). 722-744
    • (2006) Journal of the ACM , vol.53 , Issue.5 , pp. 722-744
    • Chor, B.1    Tuller, T.2
  • 5
    • 0002806690 scopus 로고    scopus 로고
    • OpenMP: An industry-standard API for shared-memory programming
    • Dagum L, Menon R. OpenMP: An industry-standard API for shared-memory programming. IEEE Computational Science and Engineering. 1998 ; 5 (1). 46-55
    • (1998) IEEE Computational Science and Engineering , vol.5 , Issue.1 , pp. 46-55
    • Dagum, L.1    Menon, R.2
  • 7
    • 79954529507 scopus 로고    scopus 로고
    • Prottest 3: Fast selection of best-fit models of protein evolution
    • Darriba D, Taboada GL, Doallo R, Posada D. Prottest 3: fast selection of best-fit models of protein evolution. Bioinformatics. 2011b ; 27: 1164-1165
    • (2011) Bioinformatics , vol.27 , pp. 1164-1165
    • Darriba, D.1    Taboada, G.L.2    Doallo, R.3    Posada, D.4
  • 8
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: A maximum likelihood approach
    • Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution. 1981 ; 17: 368-376
    • (1981) Journal of Molecular Evolution , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 9
    • 0024152983 scopus 로고
    • Phylogenies from molecular sequences: Inference and reliability
    • Felsenstein J. Phylogenies from molecular sequences: inference and reliability. Annual Review of Genetics. 1988 ; 22: 521-565
    • (1988) Annual Review of Genetics , vol.22 , pp. 521-565
    • Felsenstein, J.1
  • 10
    • 0030807655 scopus 로고    scopus 로고
    • BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
    • Gascuel O. BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Molecular Biology and Evolution. 1997 ; 14 (7). 685-95
    • (1997) Molecular Biology and Evolution , vol.14 , Issue.7 , pp. 685-695
    • Gascuel, O.1
  • 11
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon O, Gascuel S. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology. 2003 ; 52: 696-704
    • (2003) Systematic Biology , vol.52 , pp. 696-704
    • Guindon, O.1    Gascuel, S.2
  • 12
    • 2442581218 scopus 로고    scopus 로고
    • The importance of proper model assumption in Bayesian phylogenetic
    • Lemmon AR, Moriarty EC. The importance of proper model assumption in Bayesian phylogenetic. Systematic Biology. 2004 ; 53: 265-277
    • (2004) Systematic Biology , vol.53 , pp. 265-277
    • Lemmon, A.R.1    Moriarty, E.C.2
  • 13
    • 45849154165 scopus 로고    scopus 로고
    • JModelTest: Phylogenetic model averaging
    • Posada D. jModelTest: phylogenetic model averaging. Molecular Biology and Evolution. 2008 ; 25 (7). 1253-1256
    • (2008) Molecular Biology and Evolution , vol.25 , Issue.7 , pp. 1253-1256
    • Posada, D.1
  • 14
    • 0035527410 scopus 로고    scopus 로고
    • Selecting the best-fit model of nucleotide substitution
    • Posada D, Crandall KA. Selecting the best-fit model of nucleotide substitution. Systematic Biology. 2001 ; 50 (4). 580-601
    • (2001) Systematic Biology , vol.50 , Issue.4 , pp. 580-601
    • Posada, D.1    Crandall, K.A.2
  • 15
    • 0000120766 scopus 로고
    • Estimating the dimension of a model
    • Schwarz G. Estimating the dimension of a model. Annals of Statistics. 1978 ; 6: 461-464
    • (1978) Annals of Statistics , vol.6 , pp. 461-464
    • Schwarz, G.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.