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]
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]