bpp::Alphabet Member List

This is the complete list of members for bpp::Alphabet, including all inherited members.

Alphabet()	bpp::Alphabet	inline
charToInt(const std::string &state) const =0	bpp::Alphabet	pure virtual
clone() const =0	bpp::Alphabet	pure virtual
equals(const Alphabet &alphabet) const =0	bpp::Alphabet	pure virtual
getAlias(int state) const =0	bpp::Alphabet	pure virtual
getAlias(const std::string &state) const =0	bpp::Alphabet	pure virtual
getAlphabetType() const =0	bpp::Alphabet	pure virtual
getCharCodeAt(size_t stateIndex) const =0	bpp::Alphabet	pure virtual
getGapCharacterCode() const =0	bpp::Alphabet	pure virtual
getGeneric(const std::vector< int > &states) const =0	bpp::Alphabet	pure virtual
getGeneric(const std::vector< std::string > &states) const =0	bpp::Alphabet	pure virtual
getIntCodeAt(size_t stateIndex) const =0	bpp::Alphabet	pure virtual
getName(int state) const =0	bpp::Alphabet	pure virtual
getName(const std::string &state) const =0	bpp::Alphabet	pure virtual
getNumberOfChars() const =0	bpp::Alphabet	pure virtual
getNumberOfStates() const =0	bpp::Alphabet	pure virtual
getNumberOfTypes() const =0	bpp::Alphabet	pure virtual
getResolvedChars() const =0	bpp::Alphabet	pure virtual
getSize() const =0	bpp::Alphabet	pure virtual
getState(int state) const =0	bpp::Alphabet	pure virtual
getState(const std::string &state) const =0	bpp::Alphabet	pure virtual
getStateAt(size_t stateIndex) const =0	bpp::Alphabet	pure virtual
getStateCodingSize() const =0	bpp::Alphabet	pure virtual
getStateIndex(int state) const =0	bpp::Alphabet	pure virtual
getStateIndex(const std::string &state) const =0	bpp::Alphabet	pure virtual
getSupportedChars() const =0	bpp::Alphabet	pure virtual
getSupportedInts() const =0	bpp::Alphabet	pure virtual
getUnknownCharacterCode() const =0	bpp::Alphabet	pure virtual
intToChar(int state) const =0	bpp::Alphabet	pure virtual
isCharInAlphabet(const std::string &state) const =0	bpp::Alphabet	pure virtual
isGap(int state) const =0	bpp::Alphabet	pure virtual
isGap(const std::string &state) const =0	bpp::Alphabet	pure virtual
isIntInAlphabet(int state) const =0	bpp::Alphabet	pure virtual
isResolvedIn(int state1, int state2) const =0	bpp::Alphabet	pure virtual
isUnresolved(int state) const =0	bpp::Alphabet	pure virtual
isUnresolved(const std::string &state) const =0	bpp::Alphabet	pure virtual
~Alphabet()=default	bpp::Alphabet	virtual
~Clonable()=default	bpp::Clonable	virtual