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cogent.evolve.substitution_model.GeneralStationary

All Samples(4)  |  Call(2)  |  Derive(0)  |  Import(2)


src/c/o/cogent-1.5.3/tests/test_evolve/test_newq.py   cogent(Download)
 
from cogent import LoadSeqs, DNA, LoadTree, LoadTable
from cogent.evolve.substitution_model import Nucleotide, General, \
                                                GeneralStationary
from cogent.evolve.discrete_markov import DiscreteSubstitutionModel

    def fit_gen_stat(results=results):
        if 'gen_stat' in results:
            return
        gen_stat = GeneralStationary(DNA.Alphabet)
        gen_stat_lf = _make_likelihood(gen_stat, tree, results)


src/p/y/pycogent-HEAD/tests/test_evolve/test_newq.py   pycogent(Download)
 
from cogent import LoadSeqs, DNA, LoadTree, LoadTable
from cogent.evolve.substitution_model import Nucleotide, General, \
                                                GeneralStationary
from cogent.evolve.discrete_markov import DiscreteSubstitutionModel

    def fit_gen_stat(results=results):
        if 'gen_stat' in results:
            return
        gen_stat = GeneralStationary(DNA.Alphabet)
        gen_stat_lf = _make_likelihood(gen_stat, tree, results)