BEAST v2.5.0 Documentation: beast.evolution.speciation.YuleModel

implemented by the following
beast.evolution.speciation.BirthDeathGernhard08Model

BEASTObject that performs calculations based on the State.
Probabilistic representation that can produce a log probability for instance for running an MCMC chain.
Distribution on a tree, typically a prior such as Coalescent or Yule
A likelihood function for speciation processes.
Pure birth model (i.e. no deaths)

Logable: yes, this can be used in a log.

Inputs:

birthDiffRate, originHeight, conditionalOnRoot, tree, treeIntervals

 

birthDiffRate
type: beast.core.parameter.RealParameter
birth difference rate parameter, lambda - mu in birth/death model
Required input

 

originHeight
type: beast.core.parameter.RealParameter
the height of the point of origin of the process
Optional input

 

conditionalOnRoot
type: java.lang.Boolean
Whether to condition on the root (default false)
Optional input. Default: false

 

tree
type: beast.evolution.tree.TreeInterface
tree over which to calculate a prior or likelihood
Either this, or treeIntervals needs to be specified

 

treeIntervals
type: beast.evolution.tree.coalescent.TreeIntervals
Intervals for a phylogenetic beast tree
Either this, or tree needs to be specified