Here is a list of all variables with links to the classes they belong to:
- c -
- cache_mutex : vg::IndexedVG
- cached_fragment_direction : vg::FragmentLengthStatistics
- cached_fragment_length_mean : vg::FragmentLengthStatistics
- cached_fragment_length_stdev : vg::FragmentLengthStatistics
- cached_fragment_orientation_same : vg::FragmentLengthStatistics
- cached_genotypes : vg::WindowedVcfBuffer
- candidate_node : vg::WFATree
- candidate_point : vg::WFATree
- candidates_per_window : vg::MinimizerMapper::Minimizer
- category : vg::subcommand::Subcommand
- chain_component : vg::MIPayloadValues, vg::SnarlDistanceIndexClusterer::SeedCache, vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem::SnarlTreeChild
- chain_component_end : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
- CHAIN_COMPONENT_MASK : vg::MIPayload
- CHAIN_COMPONENT_OFFSET : vg::MIPayload
- chain_component_start : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
- CHAIN_COMPONENT_WIDTH : vg::MIPayload
- chain_deletions : vg::Constructor
- chain_end : vg::ChainIterator
- chain_end_rewrites : vg::NetGraph
- chain_ends_by_start : vg::NetGraph
- chain_id : HaplotypesConfig
- chain_min_score : vg::MinimizerMapper
- chain_score_threshold : vg::MinimizerMapper
- chain_start : vg::ChainIterator
- chaining_cluster_distance : vg::MinimizerMapper
- chains : vg::Haplotypes, vg::Recombinator::Statistics
- char_count : vg::Pictographs
- chars : vg::Pictographs
- checkin_high_water_kb : vg::Watchdog::thread_state_t
- child_chains : vg::SnarlManager::SnarlRecord
- child_snarls : vg::Deconstructor::NestingInfo
- child_support_map : vg::NestedCachedPackedTraversalSupportFinder
- children : vg::BitStringTree< Item >::TreeNode, vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem, vg::SnarlManager::SnarlRecord, vg::TreeNode< T >, vg::TreeSubgraph, vg::WFANode
- choose_band_padding : vg::MultipathMapper, vg::Surjector
- chrom : vg::Transcript
- chrom_length : vg::Transcript
- circular : vg::Paths
- close : hFILE_backend
- cluster_coverage_threshold : vg::MinimizerMapper
- cluster_num : vg::SnarlDistanceIndexClusterer::ClusterHead
- cluster_score_threshold : vg::MinimizerMapper
- cluster_threshold : vg::Deconstructor
- clusterer : vg::MinimizerMapper
- codenames : vg::Version
- codes_by_option : vg::ConfigurableParser
- cohort : haplo::linear_haplo_structure
- col_idx : vg::BandedGlobalAligner< IntType >::AltTracebackStack::Deflection
- colors : vg::Colors
- column_number : vg::algorithms::GFAFormatError
- column_of : vg::NGSSimulator::MarkovDistribution< From, To >
- COMPILER : vg::Version
- complement : vg::ChainIterator, vg::ReverseGraph
- complement_filter : vg::ReadFilter< Read >
- component_min_dist : vg::MultipathMapper
- component_params : vg::SpliceStats
- component_path_set_of_path : vg::PathComponentIndex
- component_path_sets : vg::PathComponentIndex
- components : vg::MEMClusterer::HitGraph
- compressed : vg::GBWTHandler
- cond_distrs : vg::NGSSimulator::MarkovDistribution< From, To >
- configurables : vg::ConfigurableParser
- connection : vg::Subpath
- connections : vg::Recombinator::Statistics
- connectivity : vg::NetGraph
- consistent : vg::Genotyper::Affinity
- construction_jobs : vg::Haplotypes::Header
- containing_net_handle : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
- content : vg::BitStringTree< Item >::TreeNode
- contents : handlegraph::algorithms::SubHandleGraph, vg::SubHandleGraph
- context_bases : vg::GraphSynchronizer::Lock
- context_length : GBWTConfig
- contig : vg::BREAKPOINT
- contig_name : vg::Haplotypes::TopLevelChain, vg::RecombinatorHaplotype
- contig_prefix : HaplotypesConfig
- contigs : GBWTConfig
- control_mean : vg::BenchmarkResult
- control_stddev : vg::BenchmarkResult
- coordinates : vg::Exon
- copy_id : vg::TranscriptPath
- correct : vg::Alignment
- correctly_mapped : vg::Alignment
- count : vg::count_back_inserter< T >
- count_of_max : vg::SummaryStatistics
- count_threads : GBWTConfig
- counts : vg::Counts
- cov_bin_size : vg::Packer
- COVERAGE : vg::Recombinator
- coverage : vg::Recombinator::Parameters, vg::SnarlDistanceIndexClusterer::Cluster
- coverage_civ : vg::Packer
- coverage_dynamic : vg::Packer
- cr : vg::Viz
- crossing_edges : vg::PhaseUnfolder
- cumulative_seq_len : vg::BandedGlobalAligner< IntType >::BAMatrix
- curr : vg::algorithms::kmer_t, vg::algorithms::walk_t, vg::kmer_t, vg::PathBranch
- curr_deflxn : vg::BandedGlobalAligner< IntType >::AltTracebackStack
- curr_traceback : vg::BandedGlobalAligner< IntType >::AltTracebackStack
- current : vg::IncrementIter, vg::WindowedVcfBuffer
- current_chains : vg::SnarlDistanceIndexClusterer::ClusteringProblem
- current_id : vg::VG
- current_node_id : vg::BandedGlobalAligner< IntType >::BABuilder
- current_node_sequence : vg::BandedGlobalAligner< IntType >::BABuilder
- CURRENT_VERSION : xg::XG
- cursor_pool : vg::IndexedVG
- cursor_pool_mutex : vg::IndexedVG
- cursor_streams : vg::IndexedVG