BppOSubstitutionModelFormat.cpp File Reference
#include <Bpp/Io/BppODiscreteDistributionFormat.h>#include <Bpp/Io/BppOParametrizableFormat.h>#include <Bpp/Io/FileTools.h>#include <Bpp/Io/OutputStream.h>#include <Bpp/Seq/Alphabet/AlphabetTools.h>#include <Bpp/Seq/App/SequenceApplicationTools.h>#include <Bpp/Text/KeyvalTools.h>#include <Bpp/Text/StringTokenizer.h>#include <Bpp/Text/TextTools.h>#include "../App/PhylogeneticsApplicationTools.h"#include "../Model/AbstractBiblioMixedTransitionModel.h"#include "../Model/BinarySubstitutionModel.h"#include "../Model/D1WalkSubstitutionModel.h"#include "../Model/Codon/AbstractCodonAAFitnessSubstitutionModel.h"#include "../Model/Codon/AbstractCodonAARateSubstitutionModel.h"#include "../Model/Codon/AbstractCodonBGCSubstitutionModel.h"#include "../Model/Codon/AbstractCodonClusterAASubstitutionModel.h"#include "../Model/Codon/AbstractCodonCpGSubstitutionModel.h"#include "../Model/Codon/AbstractCodonDistanceSubstitutionModel.h"#include "../Model/Codon/AbstractCodonFitnessSubstitutionModel.h"#include "../Model/Codon/AbstractCodonFrequenciesSubstitutionModel.h"#include "../Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.h"#include "../Model/Codon/CodonAdHocSubstitutionModel.h"#include "../Model/Codon/CodonSameAARateSubstitutionModel.h"#include "../Model/Codon/DFP07.h"#include "../Model/Codon/GY94.h"#include "../Model/Codon/KCM.h"#include "../Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.h"#include "../Model/Codon/KroneckerCodonDistanceSubstitutionModel.h"#include "../Model/Codon/MG94.h"#include "../Model/Codon/SENCA.h"#include "../Model/Codon/TripletSubstitutionModel.h"#include "../Model/Codon/YN98.h"#include "../Model/Codon/YNGP_M10.h"#include "../Model/Codon/YNGP_M7.h"#include "../Model/Codon/YNGP_M8.h"#include "../Model/Codon/YNGP_M9.h"#include "../Model/EquiprobableSubstitutionModel.h"#include "../Model/FromMixtureSubstitutionModel.h"#include "../Model/G2001.h"#include "../Model/InMixedSubstitutionModel.h"#include "../Model/KroneckerWordSubstitutionModel.h"#include "../Model/MixtureOfATransitionModel.h"#include "../Model/MixtureOfTransitionModels.h"#include "../Model/Nucleotide/F81.h"#include "../Model/Nucleotide/F84.h"#include "../Model/Nucleotide/GTR.h"#include "../Model/Nucleotide/HKY85.h"#include "../Model/Nucleotide/JCnuc.h"#include "../Model/Nucleotide/K80.h"#include "../Model/Nucleotide/L95.h"#include "../Model/Nucleotide/NucleotideSubstitutionModel.h"#include "../Model/Nucleotide/RN95.h"#include "../Model/Nucleotide/RN95s.h"#include "../Model/Nucleotide/SSR.h"#include "../Model/Nucleotide/T92.h"#include "../Model/Nucleotide/TN93.h"#include "../Model/Nucleotide/YpR.h"#include "../Model/Nucleotide/gBGC.h"#include "../Model/OneChangeRegisterTransitionModel.h"#include "../Model/OneChangeTransitionModel.h"#include "../Model/POMO.h"#include "../Model/Protein/Coala.h"#include "../Model/Protein/CoalaCore.h"#include "../Model/Protein/DSO78.h"#include "../Model/Protein/JCprot.h"#include "../Model/Protein/JTT92.h"#include "../Model/Protein/LG08.h"#include "../Model/Protein/LGL08_CAT.h"#include "../Model/Protein/ProteinSubstitutionModel.h"#include "../Model/Protein/UserProteinSubstitutionModel.h"#include "../Model/Protein/WAG01.h"#include "../Model/RE08.h"#include "../Model/RegisterRatesSubstitutionModel.h"#include "../Model/TS98.h"#include "../Model/TwoParameterBinarySubstitutionModel.h"#include "../Model/WordSubstitutionModel.h"#include "BppOFrequencySetFormat.h"#include "BppORateDistributionFormat.h"#include "BppOSubstitutionModelFormat.h"#include "BppOTransitionModelFormat.h"#include <Bpp/Numeric/Prob/ConstantDistribution.h>#include <Bpp/Numeric/AutoParameter.h>#include <iomanip>#include <set>#include <memory>
Include dependency graph for BppOSubstitutionModelFormat.cpp:
