kaks-torture: Expected numeric results for Ka and Ks in extreme cases

In seqinr: Biological Sequences Retrieval and Analysis

Expected numeric results for Ka and Ks in extreme cases

Description

This data set is what should be obtained when runing kaks() on the test file kaks-torture.fasta in the sequences directory of the seqinR package.

Usage

data(kaksTorture)

Format

A list with 4 components of class dist.

ka

Ka

ks

Ks

vka

variance for Ka

vks

variance for Ks

Source

See comments in kaks-torture.fasta for R code used to produce it.

References

citation("seqinr")

Examples

data(kaksTorture)
kaks.torture <- read.alignment(file = system.file("sequences/kaks-torture.fasta", 
  package = "seqinr"), format = "fasta")
#
# Failed on windows :
#
# stopifnot(identical(kaksTorture, kaks(kaks.torture)))
# stopifnot(identical(kaksTorture, kaks(kaks.torture, rmgap = FALSE)))

seqinr documentation built on April 6, 2023, 1:10 a.m.