vg
tools for working with variation graphs
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This is the complete list of members for vg::GaplessExtender, including all inherited members.
aligner | vg::GaplessExtender | |
cluster_type typedef | vg::GaplessExtender | |
extend(cluster_type &cluster, const std::string &sequence, const gbwtgraph::CachedGBWTGraph *cache=nullptr, size_t max_mismatches=MAX_MISMATCHES, double overlap_threshold=OVERLAP_THRESHOLD) const | vg::GaplessExtender | |
full_length_extensions(const std::vector< GaplessExtension > &result, size_t max_mismatches=MAX_MISMATCHES) | vg::GaplessExtender | static |
GaplessExtender() | vg::GaplessExtender | |
GaplessExtender(const gbwtgraph::GBWTGraph &graph, const Aligner &aligner) | vg::GaplessExtender | explicit |
get_handle(seed_type seed) | vg::GaplessExtender | inlinestatic |
get_node_offset(seed_type seed) | vg::GaplessExtender | inlinestatic |
get_pos(seed_type seed) | vg::GaplessExtender | inlinestatic |
get_read_offset(seed_type seed) | vg::GaplessExtender | inlinestatic |
graph | vg::GaplessExtender | |
MAX_MISMATCHES | vg::GaplessExtender | static |
OVERLAP_THRESHOLD | vg::GaplessExtender | static |
seed_type typedef | vg::GaplessExtender | |
to_seed(pos_t pos, size_t read_offset) | vg::GaplessExtender | inlinestatic |
transform_alignment(Alignment &aln, const std::vector< std::vector< handle_t >> &haplotype_paths) const | vg::GaplessExtender | |
unfold_haplotypes(const std::unordered_set< nid_t > &subgraph, std::vector< std::vector< handle_t >> &haplotype_paths, bdsg::HashGraph &unfolded, const gbwtgraph::CachedGBWTGraph *cache=nullptr) const | vg::GaplessExtender |