TN93_sym — The Tamura-Nei (1993) nucleotide
exchangability matrix
Usage
TN93_sym(kappaPur: Double, kappaPyr: Double, a: a)
→ ExchangeModel<a>
Arguments
A default beginning with ~ specifies a prior
distribution.
-
kappaPur: -
A<->G Transition/transversion ratio
-
Default:
~LogNormal(log(2),0.25) -
kappaPyr: -
C<->T Transition/transversion ratio
-
Default:
~LogNormal(log(2),0.25) -
a: -
The nucleotide alphabet (DNA or RNA).
-
Default: The alphabet in the current context
Original default expressions
-
a -
get_state(alphabet)
Description
Symmetric exchangability matrix from Tamura-Nei
Citation
Tamura, Koichiro; Nei, Masatoshi (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees.. Molecular biology and evolution 10(3): 512--526. DOI: 10.1093/oxfordjournals.molbev.a040023