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template<class Element > |
void | vg::in_place_subvector (std::vector< Element > &vec, size_t head, size_t tail) |
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void | vg::match_initial (GaplessExtension &match, const std::string &seq, gbwtgraph::GBWTGraph::view_type target, const Aligner *aligner) |
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size_t | vg::match_forward (GaplessExtension &match, const std::string &seq, gbwtgraph::GBWTGraph::view_type target, uint32_t mismatch_limit, const Aligner *aligner) |
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void | vg::match_backward (GaplessExtension &match, const std::string &seq, gbwtgraph::GBWTGraph::view_type target, uint32_t mismatch_limit, const Aligner *aligner) |
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void | vg::remove_duplicates (std::vector< GaplessExtension > &result) |
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void | vg::find_mismatches (const std::string &seq, const gbwtgraph::GBWTGraph &graph, std::vector< GaplessExtension > &result) |
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size_t | vg::interval_length (std::pair< size_t, size_t > interval) |
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bool | vg::trim_mismatches (GaplessExtension &extension, const gbwtgraph::GBWTGraph &graph, const gbwt::CachedGBWT &cache, const Aligner &aligner) |
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