Uses of Class pal.tree.SimulatedAlignment.Factory

Packages that use SimulatedAlignment.Factory

Package

Description

Classes to model population genetic processes using the coalescent.

Uses of SimulatedAlignment.Factory in pal.coalescent

Constructors in pal.coalescent with parameters of type SimulatedAlignment.Factory

Modifier

Constructor

Description

SerialCoalescentGenerator(TimeOrderCharacterData tocd, DemographicModel demographicModel, int numberOfTreesToGenerate, TreeOperation treeFinisher, SimulatedAlignment.Factory alignmentFactory)

SerialCoalescentGenerator(TimeOrderCharacterData tocd, DemographicModel demographicModel, TreeOperation treeFinisher, SimulatedAlignment.Factory alignmentFactory)
Uses of SimulatedAlignment.Factory in pal.supgma

Methods in pal.supgma with parameters of type SimulatedAlignment.Factory

Modifier and Type

Method

Description

SUPGMABase.CISummary

SUPGMABase.PopulationParameters.inferCI(AlgorithmCallback callback, int numberOfReplicates, SimulatedAlignment.Factory alignmentFactory, SubstitutionModel evolutionaryModel, LMSSolver solver)