Here is a list of all class members with links to the classes they belong to:

- h -

• halt() : vg::ZipCodeTree::reverse_iterator
• handle : vg::io::BlockedGzipInputStream , vg::io::BlockedGzipOutputStream , vg::io::MessageIterator , vg::io::ProtobufEmitter< T > , xg::XGPath
• handle_at_order() : vg::IncrementalSubgraph
• handle_at_path_position() : xg::XG
• handle_at_position() : xg::XGPath
• handle_base_option : vg::ConfigurableParser
• handle_buffer() : vg::VcfBuffer
• handle_graph : vg::MinDistanceClusterer , vg::TargetValueSearch
• handle_idxs : vg::JoinedSpliceGraph
• handle_rank() : xg::XG
• handle_start() : xg::XGPath
• handle_to_rank() : handlegraph::RankedHandleGraph
• handle_val_range : vg::DagifiedGraph , vg::DozeuPinningOverlay
• HandleGraphNodeSet() : vg::HandleGraphNodeSet
• HandleGraphSnarlFinder() : vg::HandleGraphSnarlFinder
• handles : xg::XGPath
• haplo_DP() : haplo::haplo_DP
• haplo_DP_column() : haplo::haplo_DP_column
• haplo_DP_rectangle() : haplo::haplo_DP_rectangle
• haplo_node : vg::PhasedGenome::iterator
• haplo_score_provider : vg::BaseMapper
• haploid_prior_logprob : vg::Genotyper
• haploid_scoring : vg::Recombinator::Parameters
• haplotype : vg::AppendHaplotypeCommand
• Haplotype() : vg::PhasedGenome::Haplotype , vg::PhasedGenome::iterator
• haplotype : vg::ReplaceSnarlHaplotypeCommand
• haplotype_consistency_exponent : vg::BaseMapper
• haplotype_gbwt_ids : vg::TranscriptPath
• haplotype_id : vg::RecombinatorFragment
• haplotype_indexer : GBWTConfig
• haplotype_input : HaplotypesConfig
• HAPLOTYPE_MATCH : handlegraph::PathMetadata
• haplotype_number : vg::PhasedGenome::iterator
• haplotype_output : HaplotypesConfig
• haplotype_to_string() : vg::VariantAdder
• haplotype_transcript_paths() : vg::Transcriptome
• HaplotypeIndexer() : vg::HaplotypeIndexer
• HaplotypeNode : vg::PhasedGenome::Haplotype , vg::PhasedGenome::HaplotypeNode
• HaplotypePartitioner() : vg::HaplotypePartitioner
• haplotypes : GBWTConfig , vg::PhasedGenome , vg::Recombinator , vg::Recombinator::Statistics , vg::SnarlState
• HaplotypesConfig() : HaplotypesConfig
• hard_hit_cap : vg::MinimizerMapper
• hard_hit_max : vg::BaseMapper
• has_annotation() : vg::multipath_alignment_t
• has_argument() : vg::BaseOption< Value, Parser > , vg::OptionInterface , vg::OptionValueParser< Value > , vg::OptionValueParser< vector< Item > >
• has_base_graph() : vg::AugmentedGraph
• has_buffer : vg::VcfBuffer
• has_chain_values : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem::SnarlTreeChild
• has_connection() : vg::subpath_t
• has_content : vg::BitStringTree< Item >::TreeNode
• has_current() : vg::io::MessageIterator , vg::io::ProtobufIterator< T >
• has_edge() : handlegraph::HandleGraph , haplo::hDP_gbwt_graph_accessor< GBWTType > , vg::VG
• has_end() : vg::HaplotypePartitioner::Subchain , vg::Haplotypes::Subchain
• has_excluded_refpos() : vg::ReadFilter< Read >
• has_excuded_feature() : vg::ReadFilter< Read >
• has_fixed_fragment_length_distr() : vg::PairedEndMapper
• has_grandparent_handle : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
• has_incorrect_order_exons() : vg::Transcriptome
• has_incremental_search() : haplo::GBWTScoreProvider< GBWTType > , haplo::ScoreProvider
• has_inverting_edge() : vg::VG
• has_inverting_edge_from() : vg::VG
• has_inverting_edge_to() : vg::VG
• has_inverting_edges() : vg::VG
• has_mapping() : vg::Paths
• has_next() : vg::BandedGlobalAligner< IntType >::AltTracebackStack , vg::subpath_t
• has_next_step() : handlegraph::PathHandleGraph , vg::MemoizingGraph , vg::PathSubgraphOverlay , vg::VG , xg::XG
• has_node() : handlegraph::algorithms::SubHandleGraph , handlegraph::HandleGraph , vg::DagifiedGraph , vg::DozeuPinningOverlay , vg::ExtraNodeGraph , vg::IdentityOverlay , vg::IncrementalSubgraph , vg::IndexedVG , vg::JoinedSpliceGraph , vg::MemoizingGraph , vg::NetGraph , vg::NullMaskingGraph , vg::PathSubgraph , vg::ReverseGraph , vg::SnarlGraph , vg::SourceSinkOverlay , vg::StrandSplitGraph , vg::SubgraphOverlay , vg::SubHandleGraph , vg::SubpathOverlay , vg::TreeSubgraph , vg::VG , xg::XG
• has_node_mapping() : vg::Paths
• has_novel_exon_boundaries() : vg::Transcriptome
• has_overlapping_exons() : vg::Transcriptome
• has_overlay_node_for() : vg::StrandSplitGraph
• has_parent_handle : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
• has_path() : handlegraph::PathHandleGraph , vg::MemoizingGraph , vg::Paths , vg::PathSubgraphOverlay , vg::subpath_t , vg::VG , xg::XG
• has_position : vg::algorithms::GFAFormatError
• has_previous_step() : handlegraph::PathHandleGraph , vg::MemoizingGraph , vg::PathSubgraphOverlay , vg::VG , xg::XG
• has_qualities() : vg::Packer
• has_reachability_edges : vg::MultipathAlignmentGraph
• has_ref : vg::Deconstructor::NestingInfo
• has_repeat() : vg::ReadFilter< Read >
• has_start() : vg::HaplotypePartitioner::Subchain , vg::Haplotypes::Subchain , vg::multipath_alignment_t
• has_supports() : vg::AugmentedGraph , vg::RepresentativeTraversalFinder , vg::SupportAugmentedGraph
• has_tabix() : vg::VcfBuffer , vg::WindowedVcfBuffer
• has_translation() : vg::Translator
• hash() : vg::VG
• hashed() : vg::Colors , vg::Pictographs
• hashed_char() : vg::Pictographs
• hasher : vg::GAFSorterRecord
• HashGraph : vg::IndexingParameters
• hDP_gbwt_graph_accessor() : haplo::hDP_gbwt_graph_accessor< GBWTType >
• head_nodes() : vg::VG
• head_tail_nodes : vg::Paths
• header : vg::Haplotypes
• header_listeners : vg::algorithms::GFAParser
• header_mutex : vg::HTSWriter
• heading : vg::subcommand::OptionGroup< Receiver >
• help : vg::subcommand::BaseArgSpec< Receiver >
• here : vg::Range< Number >
• HET_ADJUSTMENT : vg::Recombinator
• het_adjustment : vg::Recombinator::Parameters
• het_prior_logprob : vg::Genotyper
• heterozygous : vg::Recombinator
• heterozygous_prior_ln : vg::FixedGenotypePriorCalculator
• hint_paths : vg::CactusSnarlFinder
• hit_cap : vg::MinimizerMapper
• hit_max : vg::BaseMapper
• hit_t : vg::MEMClusterer
• HitEdge() : vg::MEMClusterer::HitEdge
• HitGraph() : vg::MEMClusterer::HitGraph
• HitNode() : vg::MEMClusterer::HitNode
• hits : vg::MinimizerMapper::Minimizer
• Holder : vg::subcommand::FlagArgSpec< Receiver > , vg::subcommand::RangeArgSpec< T, Receiver >
• homozygous_prior_ln : vg::FixedGenotypePriorCalculator
• hts_mode : vg::HTSWriter
• HTSAlignmentEmitter() : vg::HTSAlignmentEmitter
• HTSLIB_HEADERS : vg::Version
• HTSLIB_LIBRARY : vg::Version
• HTSWriter() : vg::HTSWriter