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Packages that use GeneralREVRateMatrix | |
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pal.substmodel | Classes describing substitution models, i.e. |
Uses of GeneralREVRateMatrix in pal.substmodel |
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Methods in pal.substmodel that return GeneralREVRateMatrix | |
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static GeneralREVRateMatrix |
GeneralREVRateMatrix.createGTR()
Create a rate matrix equivalent to the GTR model |
static GeneralREVRateMatrix |
GeneralREVRateMatrix.createGTR(double[] defaultParameters)
Create a rate matrix equivalent to the GTR model |
static 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 * * * *
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static GeneralREVRateMatrix |
GeneralREVRateMatrix.createHKY()
Create a rate matrix equivalent to the HKY model, the one parameter will be kappa |
static GeneralREVRateMatrix |
GeneralREVRateMatrix.createHKY(double defaultKappa)
Create a rate matrix equivalent to the HKY model, the one parameter will be kappa |
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