getBaseFreqs.HKY: Get the base frequency parameters

In phylosim: Flexible Simulations of Biological Sequence Evolution

Description

Get the base frequency parameters.

The order of the frequency parameters must match with the order of symbols in the NucleotideAlphabet objects.

Usage

## S3 method for class 'HKY'
getBaseFreqs(this, ...)

Arguments

this	An HKY object.
...	Not used.

Value

A matrix containing the base frequency parameters.

Author(s)

Botond Sipos, Gregory Jordan

See Also

For more information see HKY.

Examples

	# construct object
	p<-HKY()
	# set/get base frequency parameters
	setBaseFreqs(p,c(2,1,2,1)/6)
	getBaseFreqs(p)
	# set/get base frequency parameters via virtual field
	p$baseFreqs<-c(4,4,1,1)/10
	p$baseFreqs
	# get object summary
	summary(p)
 

phylosim documentation built on Nov. 22, 2019, 1:07 a.m.