LocARNA-1.9.2
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 typedefLocARNA::Ribosum [protected]
amLocARNA::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_alphabetLocARNA::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_alphabetLocARNA::Ribosum [protected]
basepair_prob(char i, char j) const LocARNA::RibosumFreq [inline]
basepair_probs_LocARNA::RibosumFreq [protected]
bmLocARNA::Ribosum [protected]
char_basename_alphabetLocARNA::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 typedefLocARNA::Ribosum
nameLocARNA::Ribosum [protected]
operator<<(std::ostream &out, const RibosumFreq &ribosum)LocARNA::RibosumFreq [friend]
LocARNA::Ribosum::operator<<(std::ostream &out, const Ribosum &ribosum)LocARNA::Ribosum [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 [inline, protected]
set_basename_alphabet(const std::string a[])LocARNA::Ribosum [inline, protected]
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]
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