Description Usage Arguments Details Value References See Also Examples
This function calculates the joint distribution function for two edge tree.
1 | Fmatrix(t1, t2, f0, Sx2, Sy2, Pix, Piy)
|
t1 |
represents the length from the tree root to the first node |
t2 |
represents the length from the tree root to the second node |
f0 |
the initial distribution for the four nucleotides |
Sx2 |
a 4 x 4 symmetric matrix related to the first edge |
Sy2 |
a 4 x 4 symmetric matrix related to the second edge |
Pix |
a diagonal matrix for the stationary distribution of the first edge |
Piy |
a diagonal matrix for the stationary distribution of the second edge |
This function calculates the joint distribution function for a two edge tree with different edge lengths, stationary distributions and differentS matrices.
A 4 x 4 matrix containing the joint edges
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.
gn, Smatrix
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