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vg
tools for working with variation graphs
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This is the complete list of members for vg::BandedGlobalAligner< IntType >, including all inherited members.
| adjust_for_base_quality | vg::BandedGlobalAligner< IntType > | private |
| align(int8_t *score_mat, int8_t *nt_table, int8_t gap_open, int8_t gap_extend) | vg::BandedGlobalAligner< IntType > | |
| alignment | vg::BandedGlobalAligner< IntType > | private |
| alt_alignments | vg::BandedGlobalAligner< IntType > | private |
| banded_matrices | vg::BandedGlobalAligner< IntType > | private |
| BandedGlobalAligner(Alignment &alignment, const HandleGraph &g, int64_t band_padding, bool permissive_banding=false, bool adjust_for_base_quality=false) | vg::BandedGlobalAligner< IntType > | |
| BandedGlobalAligner(Alignment &alignment, const HandleGraph &g, vector< Alignment > &alt_alignments, int64_t max_multi_alns, int64_t band_padding, bool permissive_banding=false, bool adjust_for_base_quality=false) | vg::BandedGlobalAligner< IntType > | |
| BandedGlobalAligner(Alignment &alignment, const HandleGraph &g, vector< Alignment > *alt_alignments, int64_t max_multi_alns, int64_t band_padding, bool permissive_banding=false, bool adjust_for_base_quality=false) | vg::BandedGlobalAligner< IntType > | private |
| find_banded_paths(bool permissive_banding, int64_t band_padding, vector< bool > &node_masked, vector< pair< int64_t, int64_t >> &band_ends) | vg::BandedGlobalAligner< IntType > | private |
| graph | vg::BandedGlobalAligner< IntType > | private |
| InsertCol enum value | vg::BandedGlobalAligner< IntType > | private |
| InsertRow enum value | vg::BandedGlobalAligner< IntType > | private |
| Match enum value | vg::BandedGlobalAligner< IntType > | private |
| matrix_t enum name | vg::BandedGlobalAligner< IntType > | private |
| max_multi_alns | vg::BandedGlobalAligner< IntType > | private |
| node_id_to_idx | vg::BandedGlobalAligner< IntType > | private |
| path_lengths_to_sinks(vector< int64_t > &shortest_path_to_sink, vector< int64_t > &longest_path_to_sink) | vg::BandedGlobalAligner< IntType > | private |
| shortest_seq_paths(vector< int64_t > &seq_lens_out) | vg::BandedGlobalAligner< IntType > | private |
| sink_nodes | vg::BandedGlobalAligner< IntType > | private |
| source_nodes | vg::BandedGlobalAligner< IntType > | private |
| topological_order | vg::BandedGlobalAligner< IntType > | private |
| traceback(int8_t *score_mat, int8_t *nt_table, int8_t gap_open, int8_t gap_extend, IntType min_inf) | vg::BandedGlobalAligner< IntType > | private |
| ~BandedGlobalAligner() | vg::BandedGlobalAligner< IntType > |
1.8.17