logL.joint.multi.OUOU.user: Log-likelihoods for evolutionary models

Description

Returns log-likelihood for a multivariate Ornstein-Uhlenbeck model with used defined A and R matrices..

Usage

logL.joint.multi.OUOU.user(
  init.par,
  yy,
  A.user,
  R.user,
  locations.A,
  location.diag.A,
  location.upper.tri.A,
  location.lower.tri.A,
  locations.R,
  location.diag.R,
  location.upper.tri.R
)

Value

The log-likelihood of the parameter estimates, given the data.

Arguments

init.par: initial (starting) parameters values
yy: a multivariate evoTS object
A.user: the pull matrix.
R.user: the drift matrix.
locations.A: location (row and column) of parameters (elements) in the A matrix that is estimated
location.diag.A: location (row and column) of parameters (elements) in the diagonal of the A matrix that is estimated
location.upper.tri.A: location (row and column) of parameters (elements) in the upper triangle of the A matrix that is estimated
location.lower.tri.A: location (row and column) of parameters (elements) in the lower triangle of the A matrix that is estimated
locations.R: location (row and column) of parameters (elements) in the R matrix that is estimated
location.diag.R: location (row and column) of parameters (elements) in the diagonal of the R matrix that is estimated
location.upper.tri.R: location (row and column) of parameters (elements) in the upper triangle of the R matrix that is estimated

Author

Kjetil Lysne Voje

Details

In general, users will not be access these functions directly, but instead use the optimization functions, which use these functions to find the best-supported parameter values.