_alignment_column_t() -> decltype(std::declval< alignment_algorithm_t >().current_alignment_column()) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | privatestatic |
alignment_algorithm()=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |
alignment_algorithm(alignment_algorithm const &)=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |
alignment_algorithm(alignment_algorithm &&)=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |
alignment_algorithm(config_t const &cfg) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineexplicit |
alignment_column | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
alignment_column_it | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
alignment_column_iterator_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
alignment_column_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
alignment_result_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
cfg_ptr | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
check_valid_band_parameter(sequence1_t &&sequence1, sequence2_t &&sequence2, align_cfg::band_fixed_size const &band) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
compute_alignment_column(sequence1_value_t const &seq1_value, sequence2_t &&sequence2) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
compute_matrix(sequence1_t &sequence1, sequence2_t &sequence2) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
compute_matrix(sequence1_t &sequence1, sequence2_t &sequence2, align_cfg::band_fixed_size const &band) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
compute_single_pair(size_t const idx, sequence1_t &&sequence1, sequence2_t &&sequence2, callback_t &callback) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
convert_batch_of_sequences_to_simd_vector(sequence_range_t &sequences) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
dump_alignment_column() | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
finalise_alignment() noexcept | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
finalise_last_cell_in_column(bool const at_last_row) noexcept | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
initialise_debug_matrices(sequence1_t &sequence1, sequence2_t &sequence2) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
initialise_first_alignment_column(sequence2_t &&sequence2) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
make_alignment_result(index_t const idx, sequence1_t &sequence1, sequence2_t &sequence2, callback_t &callback) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
make_alignment_result(indexed_sequence_pair_range_t &&index_sequence_pairs, callback_t &callback) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inlineprivate |
max_size_in_collection | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
operator()(indexed_sequence_pairs_t &&indexed_sequence_pairs, callback_t &&callback) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inline |
operator()(indexed_sequence_pairs_t &&indexed_sequence_pairs, callback_t &&callback) | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | inline |
operator=(alignment_algorithm const &)=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |
operator=(alignment_algorithm &&)=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |
score_debug_matrix | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
score_debug_matrix_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
trace_debug_matrix | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
trace_debug_matrix_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
traits_t typedef | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | private |
~alignment_algorithm()=default | seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t > | |