Here is a list of all class members with links to the classes they belong to:
- u -
- uf : vg::ContractingGraph
- uf_handle() : vg::IntegratedSnarlFinder::MergedAdjacencyGraph
- uf_rank() : vg::IntegratedSnarlFinder::MergedAdjacencyGraph
- unaligned_bands : vg::AlignmentChainModel
- unaltered_motif_data : vg::SpliceStats
- unary_boundaries : vg::NetGraph
- unbacked() : vg::GBWTHandler
- uncanonicalizable_sv_warned : vg::Constructor
- uncompressed_out : vg::io::MessageEmitter
- uncompressed_out_ostream : vg::io::MessageEmitter
- uncompressed_out_written : vg::io::MessageEmitter
- underflow() : vg::io::fdinbuf, vg::io::streaminbuf
- underlying_interval() : vg::IncrementalSubgraph, vg::JoinedSpliceGraph
- Undetermined : vg::MultipathMapper
- unescape_delim() : vg::Packer
- unescape_delims() : vg::Packer
- unfold() : vg::PhaseUnfolder, vg::VG
- unfold_component() : vg::PhaseUnfolder
- unfold_max_length : vg::Genotyper
- uniform_int_distribution() : vg::uniform_int_distribution< T >
- uniform_real_distribution() : vg::uniform_real_distribution< T >
- unindex_edge_by_node_sides() : vg::VG
- union_find : vg::IntegratedSnarlFinder::MergedAdjacencyGraph
- union_groups() : vg::SparseUnionFind
- unique_minimizers() : vg::HaplotypePartitioner
- uniqueness : vg::Alignment
- universe_size : vg::SmallBitset
- unlocalized_insertion() : vg::WFAAlignment
- unlock() : vg::GraphSynchronizer::Lock
- unmapped : vg::Counts
- unmapped_filter() : vg::Filter
- unoriented_distance_between() : vg::MinimizerMapper
- unoriented_motif() : vg::SpliceStats
- unpack_bit() : handlegraph::number_bool_packing
- unpack_number() : handlegraph::number_bool_packing
- unpaired_penalty : vg::BaseMapper
- unparse() : vg::OptionValueParser< Value >, vg::OptionValueParser< vector< Item > >
- unrecord() : vg::SnarlManager
- unreverse_graph() : vg::GSSWAligner
- unreverse_graph_mapping() : vg::GSSWAligner
- unset() : vg::algorithms::TracedScore
- unstranded : vg::OrientedDistanceClusterer
- untangle_allele_traversals : vg::Deconstructor
- update() : vg::WFANode
- update_diagonal_range() : vg::WFATree
- update_haplotype_index() : vg::Transcriptome
- update_in_out_edges() : vg::FlowSort
- update_inner_values() : haplo::haplo_DP_column
- update_intron_length_distribution() : vg::SpliceStats
- update_mapping_positions() : vg::PathIndex
- update_motifs() : vg::SpliceStats
- update_nesting_info_tags() : vg::VCFOutputCaller
- update_path_indexes() : vg::GraphSynchronizer
- update_progress() : vg::Progressive
- update_score_vector() : haplo::haplo_DP_column
- update_scoring() : vg::SpliceStats
- update_state() : vg::BandedGlobalAligner< IntType >::BABuilder, vg::DinucleotideMachine
- update_transcript_paths() : vg::Transcriptome
- update_vcf_header() : vg::PoissonSupportSnarlCaller, vg::RatioSupportSnarlCaller, vg::SnarlCaller
- update_vcf_info() : vg::MCMCCaller, vg::PoissonSupportSnarlCaller, vg::RatioSupportSnarlCaller, vg::SnarlCaller, vg::SupportBasedSnarlCaller
- upper_bound : vg::BREAKPOINT
- upper_bound_heuristic : vg::TargetValueSearch
- use() : GraphHandler, vg::GBWTHandler
- use_approx_sub_mem_count : vg::BaseMapper
- use_avg : vg::Filter
- use_bounded_syncmers : vg::IndexingParameters
- use_cluster_mq : vg::Mapper
- use_compressed() : vg::GBWTHandler
- use_dynamic() : vg::GBWTHandler
- use_fanout_match_alg : vg::MultipathMapper
- use_greedy_mem_restarts : vg::BaseMapper
- use_internal_connectivity : vg::NetGraph
- use_mapq : vg::Genotyper, vg::PoissonSupportSnarlCaller
- use_min_dist_clusterer : vg::MultipathMapper
- use_pessimistic_tail_alignment : vg::MultipathMapper
- use_population_mapqs : vg::MultipathMapper
- use_stripped_match_alg : vg::MultipathMapper
- use_tvs_clusterer : vg::MultipathMapper
- used_bins_of_range() : vg::StreamIndexBase