TEST3: Overall Test for Marginal Symmetry
In DNAseqtest: Generating and Testing DNA Sequences

Description Usage Arguments Details Value References See Also Examples

This function tests for symmetry between K matched DNA sequences.

1	TEST3(Farray)

Farray

a 4^K array containing the observed divergence array N

This function calculates overall test for marginal symmetry. It depends on the 4^K observed divergence array N.

A single value gives the overall test for marginal symmetry between K matched sequences

Lars Sommer Jermiin, Vivek Jayaswal, Faisal Ababneh, John Robinson (2008). Phylogenetic model evaluation. Bioinformatics, Volume 452 of the series Methods in Molecular Biology, 331-364.

Faisal Ababneh, Lars S Jermiin, Chunsheng Ma, John Robinson (2006). Matched-pairs tests of homogeneity with applications to homologous nucleotide sequences. Bioinformatics, 22(10), 1225-1231.

Ntml, simapp, simemb, TEST2

merge2<-matrix(c(-1,-4,-3,2,-2,-5,1,3), 4, 2)
theta<-c(rep(.25,3), rep(.25,3), rep(.25,3), c(.2,.35,.79,.01,.93,.47),
3,.1,.5,.8)
F1<-gn(theta,merge2)
N1<-Ntml(1000,F1)
t3<-TEST3(N1)
t3