`Covarion.GTR` — The General Reversity Covarion Model

Usage

Covarion.GTR(submodel: DiscreteDist<CTMC<a>>,
sym: Map<String,Double>) → CTMC<a>

Underlined names in default expressions refer to other arguments. A default beginning with ~ specifies a prior distribution.

submodel:: The base mixture model
sym:: Symmetric class-switching exchangability matrix; Default: ~IIDOn(number_pairs(n_components(submodel)),Gamma(0.5,1.0))

Original default expressions

sym

~IIDOn(number_pairs(n_components(@submodel)),Gamma(0.5,1.0))

The Galtier covarion model implements switching between classes at a rate nu.

GTR +> ASRV.Gamma +> Covarion.Galtier01

GTR +> ASRV.Free +> Covarion.Galtier01