Diffeomorphism conjecture for pair frequencies in the RN+YpR model

For x{C,A}x\in\{C,A\}, let (x,x)(t)(x,x)(t) and [x,x](t)[x,x](t) denote the corresponding pair-frequency functions in the RN+YpR model, and let (x)(x)_* be the stationary frequency of xx. Diffeomorphism conjecture. In the RN+YpR model, the functions t(x,x)(t)t\mapsto (x,x)(t) and t[x,x](t)t\mapsto [x,x](t) are diffeomorphisms from [0,+)[0,+\infty) to ((x)2,(x)]((x)_*^2,(x)_*]. In the JC+CpG model the analogous assertion for (x,x)(t)(x,x)(t) is proved, whereas the RN+YpR assertion is supported by simulations and remains open.

Sources & referencesView supporting material

Primary source

Mikael Falconnet, “Phylogenetic distances for neighbour dependent substitution processes”, arXiv:0812.1962 (2010).

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