Here is a list of all class members with links to the classes they belong to:
- h -
- handle
: bdsg::HashGraph::path_mapping_t
, 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
- 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
- haplotype
: vg::AppendHaplotypeCommand
- Haplotype()
: vg::PhasedGenome::Haplotype
, vg::PhasedGenome::iterator
- haplotype
: vg::ReplaceSnarlHaplotypeCommand
- haplotype_consistency_exponent
: vg::BaseMapper
- haplotype_number
: vg::PhasedGenome::iterator
- haplotype_origin_ids
: vg::TranscriptPath
- haplotype_to_string()
: vg::VariantAdder
- HaplotypeIndexer()
: vg::HaplotypeIndexer
- HaplotypeNode
: vg::PhasedGenome::Haplotype
, vg::PhasedGenome::HaplotypeNode
- haplotypes
: vg::PhasedGenome
, vg::SnarlState
- hard_hit_cap
: vg::MinimizerMapper
- hard_hit_max
: vg::BaseMapper
- 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
: vg::MinimumDistanceIndex
- has_chain_bv
: vg::MinimumDistanceIndex
- has_connection()
: vg::subpath_t
- has_content
: vg::BitStringTree< Item >::TreeNode
- has_correct
: vg::Funnel::Stage
- has_current()
: vg::io::MessageIterator
, vg::io::ProtobufIterator< T >
- has_edge()
: bdsg::ODGI
, handlegraph::HandleGraph
, haplo::hDP_gbwt_graph_accessor< GBWTType >
, vg::VG
- has_fixed_fragment_length_distr()
: vg::PairedEndMapper
- 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_linear_next_step()
: bdsg::ODGI
- has_linear_previous_step()
: bdsg::ODGI
- has_mapping()
: vg::Paths
- has_next()
: vg::BandedGlobalAligner< IntType >::AltTracebackStack
, vg::subpath_t
- has_next_step()
: bdsg::HashGraph
, bdsg::ODGI
, bdsg::PackedGraph
, handlegraph::PathHandleGraph
, vg::MemoizingGraph
, vg::PathSubgraphOverlay
, vg::VG
, xg::XG
- has_node()
: bdsg::HashGraph
, bdsg::ODGI
, bdsg::PackedGraph
, 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::SourceSinkOverlay
, vg::StrandSplitGraph
, vg::SubgraphOverlay
, vg::SubHandleGraph
, vg::TreeSubgraph
, vg::VG
, xg::XG
- has_node_mapping()
: vg::Paths
- has_novel_exon_boundaries()
: vg::Transcriptome
- has_path()
: bdsg::HashGraph
, bdsg::ODGI
, bdsg::PackedGraph
, handlegraph::PathHandleGraph
, vg::MemoizingGraph
, vg::Paths
, vg::PathSubgraphOverlay
, vg::subpath_t
, vg::VG
, xg::XG
- has_previous_step()
: bdsg::HashGraph
, bdsg::ODGI
, bdsg::PackedGraph
, handlegraph::PathHandleGraph
, vg::MemoizingGraph
, vg::PathSubgraphOverlay
, vg::VG
, xg::XG
- has_qualities()
: vg::Packer
- has_reachability_edges
: vg::MultipathAlignmentGraph
- has_repeat()
: vg::ReadFilter
- has_secondary_snarl
: vg::MinimumDistanceIndex
- has_secondary_snarl_bv
: vg::MinimumDistanceIndex
- has_start()
: 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
- HashGraph()
: bdsg::HashGraph
- hDP_gbwt_graph_accessor()
: haplo::hDP_gbwt_graph_accessor< GBWTType >
- head
: bdsg::HashGraph::path_t
- head_nodes()
: vg::VG
- head_tail_nodes
: vg::Paths
- header_mutex
: vg::HTSAlignmentEmitter
- here
: vg::Range< Number >
- het_prior_logprob
: vg::Genotyper
- 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
- homogenize()
: vg::Homogenizer
- homozygous_prior_ln
: vg::FixedGenotypePriorCalculator
- hts_mode
: vg::HTSAlignmentEmitter
- HTSAlignmentEmitter()
: vg::HTSAlignmentEmitter