Here is a list of all functions with links to the classes they belong to:
- m -
- make_bands() : vg::Mapper
- make_circular() : vg::Paths
- make_compact() : vg::Packer
- make_dynamic() : vg::Packer
- make_edge() : vg::PhaseUnfolder
- make_empty() : vg::WFAAlignment
- make_graph() : vg::MSAConverter
- make_hit_graph() : vg::ComponentMinDistanceClusterer, vg::GreedyMinDistanceClusterer, vg::MEMClusterer, vg::MinDistanceClusterer, vg::NullClusterer, vg::OrientedDistanceClusterer, vg::TVSClusterer
- make_indexes() : vg::IndexRegistry
- make_linear() : vg::Paths
- make_long_options() : vg::subcommand::BaseOptionGroup, vg::subcommand::GroupedOptionGroup, vg::subcommand::OptionGroup< Receiver >
- make_nontrivial_multipath_alignment() : vg::MultipathMapper
- make_null_alignment() : vg::Surjector
- make_null_mp_alignment() : vg::Surjector
- make_plan() : vg::IndexRegistry
- make_short_options() : vg::subcommand::BaseOptionGroup, vg::subcommand::GroupedOptionGroup, vg::subcommand::OptionGroup< Receiver >
- make_snarl_graph() : vg::MCMCGenotyper
- make_snarl_map() : vg::MCMCGenotyper
- make_subset_graph() : vg::Genotyper
- make_unlocalized_insertion() : vg::WFAAlignment
- manage() : vg::SnarlManager
- map() : vg::MinimizerMapper
- map_from_chains() : vg::MinimizerMapper
- map_from_extensions() : vg::MinimizerMapper
- map_paired() : vg::MinimizerMapper
- Mapper() : vg::Mapper
- mapping() : vg::path_t
- mapping_enters_side() : vg::Genotyper
- mapping_exits_side() : vg::Genotyper
- mapping_is_total_match() : vg::VG
- mapping_likelihoods() : vg::MultipathMapper
- mapping_path_id() : vg::Paths
- mapping_path_name() : vg::Paths
- mapping_quality() : vg::multipath_alignment_t
- mapping_quality_score_diff() : vg::GSSWAligner
- mapping_size() : vg::path_t
- mapping_t() : vg::mapping_t
- mark_dfs() : vg::FlowSort
- mark_smallVariant_alignments() : vg::Filter
- mark_sv_alignments() : vg::Filter
- MarkovDistribution() : vg::NGSSimulator::MarkovDistribution< From, To >
- match_forward() : vg::WFANode
- match_predecessor() : vg::WFATree
- matches() : vg::DinucleotideMachine
- matches_annotation() : vg::ReadFilter< Read >
- matches_name() : vg::ReadFilter< Read >
- MatchPos() : vg::MatchPos
- max() : vg::WideningPRNG< PRNG, OutType >
- max_distance_from_start() : vg::IncrementalSubgraph
- max_flow_sort() : vg::FlowSort
- max_in() : vg::algorithms::TracedScore
- max_link_length() : vg::JoinedSpliceGraph
- max_node_id() : 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, vg::VGset, xg::XG
- max_node_rank() : xg::XG
- max_path_rank() : xg::XG
- max_possible_mapping_quality() : vg::GSSWAligner, vg::Mapper
- max_sample_size() : vg::FragmentLengthDistribution
- max_shift() : vg::MultipathAlignmentGraph
- max_vertex() : vg::AlignmentChainModel, vg::MEMChainModel
- MaximalExactMatch() : vg::MaximalExactMatch
- maximum_mapping_quality_approx() : vg::GSSWAligner
- maximum_mapping_quality_exact() : vg::GSSWAligner
- MCMCCaller() : vg::MCMCCaller
- MCMCGenotyper() : vg::MCMCGenotyper
- mean() : vg::FragmentLengthDistribution, vg::normal_distribution< T >, vg::truncated_normal_distribution< T >
- mean_node_length() : vg::Transcriptome
- measurements_begin() : vg::FragmentLengthDistribution
- measurements_end() : vg::FragmentLengthDistribution
- median_mem_coverage() : vg::MEMClusterer::HitGraph
- MEMAccelerator() : vg::MEMAccelerator
- MEMChainModel() : vg::MEMChainModel
- MEMChainModelVertex() : vg::MEMChainModelVertex
- MEMClusterer() : vg::MEMClusterer
- memoized_LF() : vg::MEMAccelerator
- MemoizingGraph() : vg::MemoizingGraph
- mems_id_clusters_to_alignments() : vg::Mapper
- merge() : vg::Funnel, vg::IntegratedSnarlFinder::MergedAdjacencyGraph, vg::VG
- merge_from_dynamic() : vg::Packer
- merge_from_files() : vg::Packer
- merge_group() : vg::Funnel
- merge_groups() : vg::Funnel
- merge_id_space() : vg::VGset
- merge_nodes() : vg::VG
- merge_partially_redundant_match_nodes() : vg::MultipathAlignmentGraph
- merge_rescued_mappings() : vg::MultipathMapper
- merge_state() : vg::DinucleotideMachine
- merge_union() : vg::VG
- MergedAdjacencyGraph() : vg::IntegratedSnarlFinder::MergedAdjacencyGraph
- MessageEmitter() : vg::io::MessageEmitter
- MessageIterator() : vg::io::MessageIterator
- min() : vg::WideningPRNG< PRNG, OutType >
- min_approx_path_distance() : xg::XG
- min_cut() : vg::FlowSort
- min_distance_from_start() : vg::IncrementalSubgraph
- min_dists() : vg::DeletionAligner
- min_link_length() : vg::JoinedSpliceGraph
- min_node_id() : 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
- min_pair_fragment_length() : vg::Mapper
- min_support_in_path() : vg::NestedTraversalFinder, vg::RepresentativeTraversalFinder
- MinDistanceClusterer() : vg::MinDistanceClusterer
- MinimizerMapper() : vg::MinimizerMapper
- mismatches() : vg::GaplessExtension
- motif_frequency() : vg::SpliceStats
- motif_is_reverse() : vg::SpliceStats
- motif_score() : vg::SpliceStats
- motif_size() : vg::SpliceStats
- move() : vg::SmallBitset
- MSAConverter() : vg::MSAConverter
- multi_surject() : vg::Surjector
- multipath_align() : vg::MultipathMapper
- multipath_alignment_t() : vg::multipath_alignment_t
- multipath_map() : vg::MultipathMapper
- multipath_map_paired() : vg::MultipathMapper
- MultipathAlignmentEmitter() : vg::MultipathAlignmentEmitter
- MultipathAlignmentGraph() : vg::MultipathAlignmentGraph
- MultipathMapper() : vg::MultipathMapper
- MultipathProblem() : vg::MultipathProblem
- mutable_connection() : vg::subpath_t
- mutable_edit() : vg::path_mapping_t
- mutable_mapping() : vg::path_t
- mutable_next() : vg::subpath_t
- mutable_path() : vg::subpath_t
- mutable_position() : vg::path_mapping_t
- mutable_quality() : vg::multipath_alignment_t
- mutable_sequence() : vg::edit_t, vg::multipath_alignment_t
- mutable_start() : vg::multipath_alignment_t
- mutable_subpath() : vg::multipath_alignment_t
- mutate() : vg::Sampler
- mutate_edit() : vg::Sampler