Proposes a move in state space.
Implements a version of the co-ordinated species and gene tree operator described in Jones (2015).Specifically, this operator moves the species tree root node and a set of gene tree nodes related to thespecies tree node by a uniform amount chosen from an exponential distribution, offset to preserve thetopology of all trees. See http://dx.doi.org/10.1101/010199 for full details.
beta, optimise, speciesTree, gene, kernel, kernelDistribution, weight
| type: java.lang.Double |
| Beta parameter of the exponential proposal distribution |
| Optional input. Default: 1.0 |
| type: java.lang.Boolean |
| Adjust beta parameter during the MCMC run to improve mixing. |
| Optional input. Default: true |
| type: starbeast3.tree.SpeciesTree |
| The species tree state node. |
| Required input |
| type: starbeast3.evolution.speciation.GeneTreeForSpeciesTreeDistribution*** |
| list of gene trees that constrain species tree movement |
| Optional input |
| type: starbeast3.genekernel.GTKPrior |
| the kernel of gene trees |
| Optional input |
| type: beast.base.inference.operator.kernel.KernelDistribution |
| provides sample distribution for proposals |
| Optional input |
| type: java.lang.Double |
| weight with which this operator is selected |
| Required input |