TiTvRatio: Transition / Transversion Ratio

In EricArcher/strataG: Summaries and Population Structure Analyses of Genetic Data

Transition / Transversion Ratio

Description

Calculate transition/transversion ratio. Test substitution type of two bases.

Usage

TiTvRatio(x)

subType(b1, b2)

isTi(b1, b2)

isTv(b1, b2)

Arguments

x	a gtypes object with aligned sequences or a list of aligned DNA sequences.
b1, b2	two bases to be compared.

Value

TiTvRatio: a vector providing the number of transitions (Ti), transversions (Tv), and the transition/transversion ratio (Ti.Tv.ratio).
subType: either "ti" for transition, or "tv" for transversion.
isTi and isTv: a logical identifying whether the b1 to b2 is a transition or transversion.

Author(s)

Eric Archer [e-mail]

Examples

data(dolph.seqs)

TiTvRatio(dolph.seqs)

subType("a", "c")

isTi("a", "c")

isTv("a", "c")

EricArcher/strataG documentation built on Feb. 12, 2023, 4:11 a.m.