LogLik_bounds

LogLik_bounds_est_root

A formatted tree as returned by <a rd-options="" href="/link/FormatTree_bounds?package=BBMV&version=2.1" data-mini-rdoc="BBMV::FormatTree_bounds">FormatTree_bounds</a>.

tree_formatted

dCoeff

dMat

A numeric vector giving the value of the evolutionary potential in each point of the trait grid.

A vector giving the bounds of the trait interval.

bounds

The value of the trait at the root of the tree.

x0_pos

A phylogenetic tree in phylo format.

tree

trait

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

Provides a set of functions to fit general macroevolutionary models for continuous traits evolving in adaptive landscapes of any shape. This package implements the Fokker-Planck-Kolmogorov model (FPK), in which the trait evolves under random diffusion but is also subject to a force that pulls it towards specific values - this force can be of any shape. FPK has a version in which hard reflective bounds exist at the extremes of the trait interval: this second model is called BBMV.

Florian Boucher

BBMV

Models for Continuous Traits Evolving in Macroevolutionary
Landscapes of any Shape

LogLik_bounds function

A formatted tree as returned by <a rd-options='' href='FormatTree_bounds'>FormatTree_bounds</a>.

LogLik_bounds: Likelihood of the FPK model

Description

Usage

Arguments