{
    "name": "hky85",
    "title": "The Hasegawa-Kishino-Yano (1985) nucleotide rate matrix",
    "deprecated-synonyms": ["HKY","hky","HKY85"],
    "result_type": "RevCTMC[a]",
    "constraints": ["Nucleotides[a]"],
    "citation":{"type": "article",
		"title": "Dating of the human-ape splitting by a molecular clock of mitochondrial DNA",
		"year": "1985",
		"author": [{"name": "Hasegawa, Masami"}, {"name": "Kishino, Hirohisa"}, {"name": "Yano, Taka-aki"}],
		"journal": {"name": "Journal of molecular evolution", "volume": "22", "number": "2", "pages": "160--174"},
		"identifier": [{"type":"doi","id":"10.1007/BF02101694"}]
	       },
    "call": "SModel.Nucleotides.hky85[kappa,SModel.Frequency.frequencies_from_dict[a,pi],a]",
    "args": [
        {
            "arg_name": "kappa",
            "arg_type": "Double",
            "default_value": "~log_normal[log[2],0.25]",
            "description": "Transition\/transversion ratio"
        },
        {
            "arg_name": "pi",
            "arg_type": "List[Pair[String,Double]]",
            "default_value": "~dirichlet_on[letters[@a],1]",
	    "description": "Letter frequencies"
        },
        {
            "arg_name": "a",
            "arg_type": "a",
	    "default_value": "getAlphabet",
	    "description": "The alphabet"
        }
    ],
    "description":"The HKY85 model",
    "extract": "all"
}
