setRateParamList.GTR: Set the rate parameters

In phylosim: Flexible Simulations of Biological Sequence Evolution

Description

Set the rate parameters.

The rate parameters are named as in PAML (see PAML documentation: http://bit.ly/9SQK2f).

Usage

## S3 method for class 'GTR'
setRateParamList(this, value, ...)

Arguments

this	A GTR object.
value	A list containing the rate parameters.
...	Not used.

Value

The list of rate parameters (invisible).

Author(s)

Botond Sipos, Gregory Jordan

See Also

For more information see GTR.

Examples

	# create GTR object
	p<-GTR()
	# set/get rate parameters
	setRateParamList(p,list(
                       "a"=1, "b"=2, "c"=3,
                       "d"=1, "e"=2, "f"=3
        ))
	getRateParamList(p)
	# set/get rate parameters via virtual field
	p$rateParamList<-list(
                       "a"=4, "b"=1, "c"=4,
                       "d"=1, "e"=4, "f"=1
        )
	p$rateParamList
	# get object summary
	summary(p)
 

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