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.
Experimental code with unknown use. If you know, fill this in.
A speciation model of a Yule process whose rate of birth changes at different points in the tree.
Logable: yes, this can be used in a log.
birthRates, indicators, meanRate, ratesAreMultipliers, tree, treeIntervals
| type: beast.base.inference.parameter.RealParameter |
| birth rates parameter, lambda in birth/death model |
| Required input |
| type: beast.base.inference.parameter.BooleanParameter |
| the indicators associated with nodes in the tree for sampling of individual rate of birth changes among branches. |
| Required input |
| type: beast.base.inference.parameter.RealParameter |
| an parameter to set the mean rate of birth across the whole tree |
| Required input |
| type: java.lang.Boolean |
| birth rates are multipliers (default false) |
| Optional input. Default: false |
| type: beast.base.evolution.tree.TreeInterface |
| tree over which to calculate a prior or likelihood |
| Either this, or treeIntervals needs to be specified |
| type: beast.base.evolution.tree.TreeIntervals |
| Intervals for a phylogenetic beast tree |
| Either this, or tree needs to be specified |