Here is a list of all documented class members with links to the class documentation for each member:

- c -

• calculateLCSEPM() : LocARNA::LCSEPM
• Canonical() : LocARNA::BasePairFilter::Canonical
• char_basename_alphabet : LocARNA::Ribosum
• checkAlphabet() : LocARNA::MultipleAlignment
• clear() : LocARNA::SparseMatrix< T > , LocARNA::SparseVector< T > , LocARNA::Alignment , LocARNA::Matrix< T > , LocARNA::RnaStructure
• clear_am_to_do() : LocARNA::EPM
• CLUSTAL : LocARNA::MultipleAlignment::FormatType
• cmfinder_realignment_score() : LocARNA::MultipleAlignment
• col_to_pos() : LocARNA::MultipleAlignment::SeqEntry
• column() : LocARNA::MultipleAlignment
• common_left_end_list() : LocARNA::ArcMatches
• common_left_end_lists : LocARNA::ArcMatches
• common_right_end_list() : LocARNA::ArcMatches
• common_right_end_lists : LocARNA::ArcMatches
• comp_E_entry() : LocARNA::AlignerP
• comp_Eprime_entry() : LocARNA::AlignerP
• comp_Erev_entry() : LocARNA::AlignerP
• comp_F_entry() : LocARNA::AlignerP
• comp_Fprime_entry() : LocARNA::AlignerP
• comp_Frev_entry() : LocARNA::AlignerP
• comp_M_entry() : LocARNA::AlignerP
• comp_Mprime_entry() : LocARNA::AlignerP
• comp_Mrev_entry() : LocARNA::AlignerP
• compute_arcmatch_probabilities() : LocARNA::AlignerP
• compute_arcmatch_score() : LocARNA::ExactMatcher
• compute_basematch_probabilities() : LocARNA::AlignerP
• compute_E_entry() : LocARNA::AlignerN
• compute_ensemble_probs() : LocARNA::RnaEnsembleImpl
• compute_F_entry() : LocARNA::AlignerN
• compute_fragment_match_prob() : LocARNA::AlignerP
• compute_IX() : LocARNA::AlignerN
• compute_M_entry() : LocARNA::AlignerN
• compute_McCaskill_alifold_matrices() : LocARNA::RnaEnsembleImpl
• compute_McCaskill_matrices() : LocARNA::RnaEnsembleImpl
• compute_Qm2() : LocARNA::RnaEnsembleImpl
• compute_Qm2_ali() : LocARNA::RnaEnsembleImpl
• ConfusionMatrix() : LocARNA::ConfusionMatrix
• consensus_cost() : LocARNA::TraceRange
• consensus_probability() : LocARNA::RnaDataImpl
• consensus_sequence() : LocARNA::MultipleAlignment
• consensus_structure : LocARNA::MultipleAlignment::AnnoType
• const_iterator : LocARNA::SparseVector< T > , LocARNA::Alphabet< T > , LocARNA::ArcMatches , LocARNA::MultipleAlignment , LocARNA::RnaStructure , LocARNA::SparseMatrix< T >
• constraints : LocARNA::ArcMatches , LocARNA::AlignerParams
• constraints_ : LocARNA::AlignerParams
• contains() : LocARNA::MultipleAlignment , LocARNA::RnaStructure
• count_base_pairs() : LocARNA::ConfusionMatrix
• count_common_bps() : LocARNA::ConfusionMatrix
• count_conflicting_base_pairs() : LocARNA::ConfusionMatrix
• count_potential_base_pairs() : LocARNA::ConfusionMatrix
• count_tps() : LocARNA::ConfusionMatrix
• create() : LocARNA::AlignerP , LocARNA::Aligner , LocARNA::AlignerN
• crossing() : LocARNA::RnaStructure
• current_cycles() : LocARNA::StopWatch
• current_total() : LocARNA::StopWatch