, including all inherited members.
Arc typedef | LocARNA::SparsificationMapper | |
ArcIdx typedef | LocARNA::SparsificationMapper | |
ArcIdxVec typedef | LocARNA::SparsificationMapper | |
first_valid_mat_pos_before(index_t index, seq_pos_t pos, index_t left_end=std::numeric_limits< index_t >::max()) const | LocARNA::SparsificationMapper | [inline] |
first_valid_mat_pos_before_eq(index_t index, seq_pos_t pos, index_t left_end=std::numeric_limits< index_t >::max()) const | LocARNA::SparsificationMapper | [inline] |
get_max_info_vec_size() const | LocARNA::SparsificationMapper | [inline] |
get_pos_in_seq_new(index_t idx, matidx_t pos) const | LocARNA::SparsificationMapper | [inline] |
idx_after_leq(index_t index, seq_pos_t max_col, index_t left_end=std::numeric_limits< index_t >::max()) const | LocARNA::SparsificationMapper | [inline] |
idx_geq(index_t index, seq_pos_t min_col, index_t left_end=std::numeric_limits< index_t >::max()) const | LocARNA::SparsificationMapper | [inline] |
index_t typedef | LocARNA::SparsificationMapper | |
InfoForPosVec typedef | LocARNA::SparsificationMapper | |
is_valid_pos(const Arc &arc, seq_pos_t pos) const | LocARNA::SparsificationMapper | [inline] |
is_valid_pos_external(seq_pos_t pos) const | LocARNA::SparsificationMapper | [inline] |
matching_without_gap_possible(const Arc &arc, seq_pos_t pos) const | LocARNA::SparsificationMapper | [inline] |
matidx_t typedef | LocARNA::SparsificationMapper | |
number_of_valid_mat_pos(index_t idx) const | LocARNA::SparsificationMapper | [inline] |
pos_unpaired(index_t idx, matidx_t pos) const | LocARNA::SparsificationMapper | [inline] |
seq_pos_t typedef | LocARNA::SparsificationMapper | |
SparsificationMapper(const BasePairs &bps_, const ExtRnaData &rnadata_, double prob_unpaired_in_loop_threshold_, double prob_basepair_in_loop_threshold_, bool index_left_ends) | LocARNA::SparsificationMapper | [inline] |
valid_arcs_left_adj(const Arc &arc, seq_pos_t pos) const | LocARNA::SparsificationMapper | [inline] |
valid_arcs_right_adj(index_t idx, matidx_t pos) const | LocARNA::SparsificationMapper | [inline] |
valid_seq_positions(index_t idx) const | LocARNA::SparsificationMapper | [inline] |
~SparsificationMapper() | LocARNA::SparsificationMapper | [inline, virtual] |