#include "../Node.h"
#include "../Tree.h"
#include "../Model/SubstitutionModel.h"
#include "TreeLikelihoodData.h"
#include <Bpp/Numeric/ParameterList.h>
#include <Bpp/Numeric/Parametrizable.h>
#include <Bpp/Numeric/Function/Functions.h>
#include <Bpp/Numeric/VectorTools.h>
#include <Bpp/Seq/Alphabet/Alphabet.h>
#include <Bpp/Seq/Container/SiteContainer.h>

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Classes
class	bpp::TreeLikelihood
	The TreeLikelihood interface. More...

class	bpp::TreeLikelihood::BranchIterator
	An iterator over a set of branches, specified by their node ids. More...

class	bpp::TreeLikelihood::SiteIterator
	An iterator over a set of sites, speicfied by their position. More...

class	bpp::TreeLikelihood::ConstBranchModelDescription
	A pair of SubstitutionModel / SiteIterator. More...

class	bpp::TreeLikelihood::ConstBranchModelIterator
	Iterates through all models used for all sites on a given branch. More...

class	bpp::TreeLikelihood::ConstSiteModelDescription
	A pair of SubstitutionModel / BranchIterator. More...

class	bpp::TreeLikelihood::ConstSiteModelIterator
	Iterates through all models used for all branches on a given site. More...

Namespaces
	bpp

Classes

Namespaces