Description Usage Arguments Details Value References See Also Examples
This function calculates the symmetric matrix S.
1 | Smatrix(s, pix)
|
s |
a vector of variables containing the six free parameters in the S matrix |
pix |
a vector giving the stationary probabilities for the four nucleotides A, C, G and T |
This function calculates the matrix S, which we used to calculate the rate matrix R.
A 4 x 4 symmetric matrix
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.
Pt, Fmatrix, gn ,gn2
1 2 3 4 |
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