Uses of Interface pal.algorithmics.StoppingCriteria

Packages that use StoppingCriteria
Package Description

pal.algorithmics

pal.treesearch

Uses of StoppingCriteria in pal.algorithmics

Methods in pal.algorithmics that return StoppingCriteria
Modifier and Type Method Description

StoppingCriteria StoppingCriteria.Factory.newInstance()

Uses of StoppingCriteria in pal.treesearch

Methods in pal.treesearch with parameters of type StoppingCriteria
Modifier and Type	Method	Description
`double`	GeneralLikelihoodSearcher.`optimiseAllFullHeirarchy(StoppingCriteria mainStopper, StoppingCriteria subStopper, MultivariateMinimum rateMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback, SearchMonitor monitor, MinimiserMonitor rateMonitor)`
`double`	GeneralLikelihoodSearcher.`optimiseAllPlusSubstitutionModel(StoppingCriteria stopper, MultivariateMinimum rateMinimiser, MultivariateMinimum substitutionModelMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback, SearchMonitor monitor, int substitutionModelOptimiseFrequency, MinimiserMonitor substitutionModelMonitor, MinimiserMonitor rateMonitor)`
`double`	GeneralLikelihoodSearcher.`optimiseAllSimple(StoppingCriteria stopper, MultivariateMinimum rateMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback)`
`double`	GeneralLikelihoodSearcher.`optimiseAllSimple(StoppingCriteria stopper, MultivariateMinimum rateMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback, SearchMonitor monitor, MinimiserMonitor rateMonitor)`
`double`	GeneralLikelihoodSearcher.`optimiseAllSimple(StoppingCriteria stopper, MultivariateMinimum rateMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback, SearchMonitor monitor, MinimiserMonitor rateMonitor, int groupOptimistionType)`
`double`	GeneralLikelihoodSearcher.`optimiseAllSimpleHeirarchy(StoppingCriteria stopper, MultivariateMinimum rateMinimiser, int fxFracDigits, int xFracDigits, AlgorithmCallback callback, SearchMonitor monitor, MinimiserMonitor rateMonitor)`
`double`	GeneralLikelihoodSearcher.`optimiseGeneral(StoppingCriteria stopper, int fracDigits, AlgorithmCallback callback)`
`double`	GeneralLikelihoodSearcher.`optimiseGeneral(StoppingCriteria stopper, int fracDigits, AlgorithmCallback callback, SearchMonitor monitor)`
`double`	UnrootedMLSearcher.`simpleOptimiseLikelihood(StoppingCriteria stopper, AlgorithmCallback callback)`	Optimise the branch lengths of the tree to obtain the maximum likelihood.