vg::GaplessExtender Member List

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, 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
init_mask()	vg::GaplessExtender	private
mask	vg::GaplessExtender
mask_sequence(std::string &sequence) const	vg::GaplessExtender	private
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