#include <Bpp/Io/OutputStream.h>
#include <Bpp/Numeric/Function/Optimizer.h>
#include <Bpp/Numeric/Prob/DiscreteDistribution.h>
#include <Bpp/Numeric/Prob/MultipleDiscreteDistribution.h>
#include <Bpp/Text/TextTools.h>
#include "../../Model/MarkovModulatedSubstitutionModel.h"
#include "../../Model/SubstitutionModel.h"
#include "../../Tree/Tree.h"
#include "../Likelihood/HomogeneousTreeLikelihood.h"
#include "../Model/MixedSubstitutionModelSet.h"
#include "../Model/SubstitutionModelSet.h"
#include <Bpp/Seq/Container/SiteContainer.h>
#include <Bpp/Seq/Container/VectorSiteContainer.h>
#include <Bpp/Seq/AlphabetIndex/AlphabetIndex2.h>
#include <Bpp/Seq/Io/BppOAlphabetIndex2Format.h>
#include <string>
#include <map>
#include <memory>
#include <vector>

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Classes
class	bpp::LegacyPhylogeneticsApplicationTools
	This class provides some common tools for applications. More...

Namespaces
	bpp
	Defines the basic types of data flow nodes.

Classes

Namespaces