This is the complete list of members for LocARNA::Alignment, including all inherited members.
| add_basepairA(int i, int j) | LocARNA::Alignment | |
| add_basepairB(int i, int j) | LocARNA::Alignment | |
| add_deleted_basepairA(int i, int j) | LocARNA::Alignment | |
| add_deleted_basepairB(int i, int j) | LocARNA::Alignment | |
| Alignment(const Sequence &seqA, const Sequence &seqB) | LocARNA::Alignment | |
| Alignment(const Sequence &seqA, const Sequence &seqB, const edges_t &edges) | LocARNA::Alignment | |
| Alignment(const Alignment &alignment) | LocARNA::Alignment | |
| alignment_edges(bool only_local) const | LocARNA::Alignment | |
| alistrs_to_edges(const std::string &alistrA, const std::string &alistrB) | LocARNA::Alignment | static |
| append(edge_end_t i, edge_end_t j) | LocARNA::Alignment | |
| clear() | LocARNA::Alignment | |
| dot_bracket_structureA(bool only_local) const | LocARNA::Alignment | |
| dot_bracket_structureB(bool only_local) const | LocARNA::Alignment | |
| edge_end_pair_t typedef (defined in LocARNA::Alignment) | LocARNA::Alignment | |
| edge_end_t typedef | LocARNA::Alignment | |
| edge_ends_t typedef | LocARNA::Alignment | |
| edges_t typedef | LocARNA::Alignment | |
| empty() const | LocARNA::Alignment | |
| end_positions() const | LocARNA::Alignment | |
| operator=(const Alignment &alignment) | LocARNA::Alignment | |
| pos_pair_t typedef (defined in LocARNA::Alignment) | LocARNA::Alignment | |
| seqA() const | LocARNA::Alignment | |
| seqB() const | LocARNA::Alignment | |
| set_consensus_structure(const RnaStructure &structure) | LocARNA::Alignment | |
| set_structures(const RnaStructure &structureA, const RnaStructure &structureB) | LocARNA::Alignment | |
| start_positions() const | LocARNA::Alignment | |
| ~Alignment() | LocARNA::Alignment | |
