`K80` — The Kimura (1980) rate matrix

Usage

K80(kappa: Double, a: a)
→ CTMC<a>

Type constraints: Nucleotides<a>

Aliases: k2p

Arguments

A default beginning with ~ specifies a prior distribution.

kappa:: Transition/transversion ratio; Default: ~LogNormal(log(2),0.25)
a:: The alphabet; Default: The alphabet in the current context

Original default expressions

a

get_state(alphabet)

Description

Rate matrix with separate transition & transversion rates, equal base frequencies

Citation

Kimura, Motoo (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of molecular evolution 16(2): 111--120. DOI: 10.1007%2FBF01731581