attachProcess.Sequence: Attach a Process object to a set of Site objects aggregated...

In phylosim: Flexible Simulations of Biological Sequence Evolution

Description

Attach a Process object to a set of Site objects aggregated by a Sequence object.

Usage

## S3 method for class 'Sequence'
attachProcess(this, process, index, ...)

Arguments

this	A Sequence object.
process	A Process object.
index	An integer vector specifying a set of positions. It is set to 1:seq$length if omitted.
...	Not used.

Value

The Sequence object (invisible).

Author(s)

Botond Sipos, Gregory Jordan

See Also

For more information see Sequence.

Examples

	# create a Sequence object of length 6
	s<-Sequence(length=10,alphabets=list(NucleotideAlphabet()))
	# attach a JC69 substitution process
	attachProcess(s,JC69())
	# get the list of attached processes
	s$processes
	# attach the GTR substitution process to range 3:6
	attachProcess(s,GTR(),3:6)
	# get the list of attached processes
	s$processes
 

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