LogLik_bounds: Likelihood of the FPK model
In BBMV: Models for Continuous Traits Evolving in Macroevolutionary Landscapes of any Shape

Internal functions use to calculate the likelihood of the FPK model, used in ML and MCMC estimation.

1 2	LogLik_bounds(tree_formatted, dCoeff, dMat, bounds) LogLik_bounds_est_root(tree, trait, dCoeff, V, x0_pos, bounds)

`tree_formatted`	A formatted tree as returned by FormatTree_bounds.
`dCoeff`	The diffusion coefficient.
`dMat`	The discretized diffusion matrix.
`V`	A numeric vector giving the value of the evolutionary potential in each point of the trait grid.
`bounds`	A vector giving the bounds of the trait interval.
`x0_pos`	The value of the trait at the root of the tree.
`tree`	A phylogenetic tree in phylo format.
`trait`	A trait vector for tip taxa.

F. C. Boucher

BBMV documentation built on May 1, 2019, 10:26 p.m.

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