Covarion.Huelsenbeck02Two — The Huelsenbeck Covarion Model
Usage
Covarion.Huelsenbeck02Two(submodel: DiscreteDist<CTMC<a>>,
r1: Double, r2: Double, pi1: Double, pi2: Double, fraction1: Double) → DiscreteDist<CTMC<a>>
Arguments
A default beginning with ~ specifies a prior
distribution.
-
submodel: -
The base model
-
r1: -
s01 + s10
-
Default:
~Gamma(0.5,1) -
r2: -
s01 + s10
-
Default:
~Gamma(2,1/4) -
pi1: -
Fraction of time spent in the ON state
-
Default:
~Beta(1,1) -
pi2: -
Fraction of time spent in the ON state
-
Default:
~Beta(2,2) -
fraction1: -
Fraction of sites with rate-switching
-
Default:
~Beta(0.5,0.5)
Description
This model allows estimating the fraction of sites that follow the Huelsenbeck covarion model.
Examples
GTR +> ASRV.Gamma +> Covarion.Huelsenbeck02_testGTR +> ASRV.Free(n=5) +> Covarion.Huelsenbeck02_test