Reference Armadillo v1.1

NamePaML (yn00)
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Publication(s)(A) Nei-Gojobori (1986) method Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426 (B) Yang & Nielsen (2000) method Yang Z, Nielsen R (2000) Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol. Biol. Evol. 17:32-43 (C) LWL85, LPB93 & LWLm methods Li W.-H., C.-I. Wu, Luo (1985) A new method for estimating synonymous and nonsynonymous rates of nucleotide substitutions considering the relative likelihood of nucleotide and codon changes. Mol. Biol. Evol. 2: 150-174. Li W-H (1993) Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36:96-99 Pamilo P, Bianchi NO (1993) Evolution of the Zfx and Zfy genes - rates and interdependence between the genes. Mol. Biol. Evol. 10:271-281 Yang Z (2006) Computational Molecular Evolution. Oxford University Press, Oxford, England

Websitehttp://abacus.gene.ucl.ac.uk/software/paml.html

DescriptionCollection of various methods for estimating the numbers of synonymous and non-synonymous nucleotide substitutions.

Input (1) Alignment
Output (3) Results
Text
OutputText
Keywords (1) Selective pressure  
Related (3) PaML (baseml)  PaML (codeml)  PaML (Generate HTML)  
Sample workflowPaMLyn00.properties.db