Uses of Class
pal.substmodel.GeneralREVRateMatrix
Packages that use GeneralREVRateMatrix
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Uses of GeneralREVRateMatrix in pal.substmodel
Methods in pal.substmodel that return GeneralREVRateMatrixModifier and TypeMethodDescriptionstatic final GeneralREVRateMatrix
GeneralREVRateMatrix.createGTR()
Create a rate matrix equivalent to the GTR modelstatic final GeneralREVRateMatrix
GeneralREVRateMatrix.createGTR
(double[] defaultParameters) Create a rate matrix equivalent to the GTR modelstatic final GeneralREVRateMatrix
GeneralREVRateMatrix.createGTR
(double a, double b, double c, double d, double e) Create a rate matrix equivalent to the GTR model Parameters laid out *-> + A C G T A * a b c C * * d e G * * * 1 T * * * *
static final GeneralREVRateMatrix
GeneralREVRateMatrix.createHKY()
Create a rate matrix equivalent to the HKY model, the one parameter will be kappastatic final GeneralREVRateMatrix
GeneralREVRateMatrix.createHKY
(double defaultKappa) Create a rate matrix equivalent to the HKY model, the one parameter will be kappa