LocARNA::RibosumFreq Member List

This is the complete list of members for LocARNA::RibosumFreq, including all inherited members.

alphabet() const	LocARNA::Ribosum	inline
alphabet_type typedef	LocARNA::Ribosum	protected
am	LocARNA::Ribosum	protected
arcmatch_prob(char i, char j, char k, char l) const	LocARNA::RibosumFreq	inline
arcmatch_probs_	LocARNA::RibosumFreq	protected
arcmatch_score(char i, char j, char k, char l) const	LocARNA::Ribosum	inline
arcname_alphabet	LocARNA::Ribosum	protected
base_nonstruct_prob(char i) const	LocARNA::RibosumFreq	inline
base_nonstruct_probs_	LocARNA::RibosumFreq	protected
base_prob(char i) const	LocARNA::RibosumFreq	inline
base_probs_	LocARNA::RibosumFreq	protected
base_unpaired_prob(char i) const	LocARNA::RibosumFreq
basematch_prob(char i, char j) const	LocARNA::RibosumFreq	inline
basematch_probs_	LocARNA::RibosumFreq	protected
basematch_score(char i, char j) const	LocARNA::Ribosum	inline
basematch_score_corrected(char i, char j) const	LocARNA::RibosumFreq
basename_alphabet	LocARNA::Ribosum	protected
basepair_prob(char i, char j) const	LocARNA::RibosumFreq	inline
basepair_probs_	LocARNA::RibosumFreq	protected
bm	LocARNA::Ribosum	protected
char_basename_alphabet	LocARNA::Ribosum	protected
get_arcmatch_probs() const	LocARNA::RibosumFreq	inline
get_arcmatch_scores() const	LocARNA::Ribosum	inline
get_base_nonstruct_probs() const	LocARNA::RibosumFreq	inline
get_base_probs() const	LocARNA::RibosumFreq	inline
get_basematch_probs() const	LocARNA::RibosumFreq	inline
get_basematch_scores() const	LocARNA::Ribosum	inline
get_basepair_probs() const	LocARNA::RibosumFreq	inline
get_name() const	LocARNA::Ribosum	inline
make_char_alphabet() const	LocARNA::Ribosum	protected
matrix_t typedef	LocARNA::Ribosum
name	LocARNA::Ribosum	protected
operator<<(std::ostream &out, const RibosumFreq &ribosum)	LocARNA::RibosumFreq	friend
print_basematch_scores_corrected(std::ostream &out) const	LocARNA::RibosumFreq
read_matrix(std::istream &in, const std::string &header, matrix_t &mat, size_t xdim, size_t ydim)	LocARNA::RibosumFreq
LocARNA::Ribosum::read_matrix(std::istream &in, matrix_t &mat, const alphabet_type &names) const	LocARNA::Ribosum	protected
read_ribosum(std::istream &in)	LocARNA::Ribosum	protected
Ribosum()	LocARNA::Ribosum	protected
Ribosum(const std::string &filename)	LocARNA::Ribosum	explicit
RibosumFreq(const std::string &filename)	LocARNA::RibosumFreq	explicit
RibosumFreq() (defined in LocARNA::RibosumFreq)	LocARNA::RibosumFreq	protected
set_arcname_alphabet(const std::string a[])	LocARNA::Ribosum	inlineprotected
set_basename_alphabet(const std::string a[])	LocARNA::Ribosum	inlineprotected
string_alphabet() const	LocARNA::Ribosum	inline
write_ICC_code(std::ostream &out, const std::string &ribname) const	LocARNA::RibosumFreq
write_matrix(std::ostream &out, const std::string &name, const Matrix< double > &mat) const	LocARNA::RibosumFreq
LocARNA::Ribosum::write_matrix(std::ostream &out, const matrix_t &mat, const alphabet_type &alph) const	LocARNA::Ribosum	protected
~Ribosum()	LocARNA::Ribosum	virtual