| _back_full_prob | ymir::MAAGForwardBackwardAlgorithm | protected |
| _backward_acc (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _err_mode (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _err_prob (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _forward_acc (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _full_prob | ymir::MAAGForwardBackwardAlgorithm | protected |
| _nuc_arr1 (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _nuc_arr2 (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _pair_map (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _pairs | ymir::MAAGForwardBackwardAlgorithm | protected |
| _pairs_i (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _status (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| _vectorised (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| backward_vdj(const MAAG &maag, event_ind_t d_ind, event_ind_t j_ind) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| backward_vj(const MAAG &maag, event_ind_t j_ind) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| bfullProbability() const (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| dim_t typedef (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| DJ_nuc_probs() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| err_prob() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| event_pairs() const (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| fillZero(ProbMMC *mmc, uint start_node=0) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| forward_backward_vdj(const MAAG &maag) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| forward_backward_vj(const MAAG &maag) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| forward_vdj(const MAAG &maag, event_ind_t d_ind, event_ind_t j_ind, bool recompute_d_gen_fi) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| forward_vj(const MAAG &maag, event_ind_t j_ind) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| fullProbability() const (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| inferInsertionNucleotides(const MAAG &maag, node_ind_t ins_node, seq_len_t left_start_pos, seq_len_t left_end_pos, seq_len_t right_start_pos, seq_len_t right_end_pos, prob_t *nuc_arr, bool reversed=false) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| is_empty() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| MAAGForwardBackwardAlgorithm() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| MAAGForwardBackwardAlgorithm(const MAAG &maag, ErrorMode error_mode=NO_ERRORS) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| matrix_ind_t typedef (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| nextEvent() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| node_ind_t typedef (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | protected |
| process(const MAAG &maag, ErrorMode error_mode=NO_ERRORS) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| pushEventPair(const MAAG &maag, node_ind_t node_i, matrix_ind_t maag_mat_i, dim_t maag_row_i, dim_t maag_col_i, matrix_ind_t fb_mat_i, dim_t fb_row_i, dim_t fb_col_i) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| pushEventPairs(const MAAG &maag, node_ind_t node_i, matrix_ind_t maag_mat_i, matrix_ind_t fb_mat_i) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| pushEventPairsWithErrors(const MAAG &maag, node_ind_t node_i, matrix_ind_t maag_mat_i, matrix_ind_t fb_mat_i, node_ind_t err_node_i) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| pushEventValue(event_ind_t event_index, prob_t prob_value) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| status() const (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| VD_nuc_probs() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| vectorise_pair_map(const MAAG &maag) (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlineprotected |
| VJ_nuc_probs() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inline |
| ~MAAGForwardBackwardAlgorithm() (defined in ymir::MAAGForwardBackwardAlgorithm) | ymir::MAAGForwardBackwardAlgorithm | inlinevirtual |
1.8.11
