getStates.Sequence: Get the states of a set of Site objects aggregated by a...
In phylosim: Flexible Simulations of Biological Sequence Evolution

Description Usage Arguments Value Author(s) See Also Examples

Get the states of a set of Site objects aggregated by a Sequence object.

1 2	## S3 method for class 'Sequence' getStates(this, index, ...)

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

A character vector.

Botond Sipos, Gregory Jordan

For more information see Sequence.

	# create a sequence object
	s<-Sequence(alphabets=list(NucleotideAlphabet()),string="AATTGCCCCCTTGG")
	# get all Site states
	getStates(s)
	# get the states for a collection of sites
	getStates(s,c(1:3,5,8))
	# get states via virtual field
	s$states