- f -

• failed_filter : vg::Funnel::Item
• failed_statistic : vg::Funnel::Item
• failing : vg::Funnel::FilterPerformance
• failing_correct : vg::Funnel::FilterPerformance
• fallbacks : vg::MinimizerMapper::aligner_stats_t
• fanout_length_threshold : vg::BaseMapper
• fast_reseed : vg::BaseMapper
• fast_reseed_length_diff : vg::BaseMapper
• fasta_to_vcf_renames : vg::NameMapper
• fd : vg::io::fdinbuf , vg::io::fdoutbuf
• feature_name : vg::FeatureSet::Feature
• feature_type : vg::Transcriptome
• features : vg::FeatureSet , vg::SmallSnarlSimplifier
• file : vg::VcfBuffer
• file_name : vg::algorithms::GFAFormatError
• filename : job_type , vg::GBWTHandler
• filenames : vg::IndexFile , vg::temp_file::Handler , vg::VGset , xg::temp_file::Handler
• FILES_PER_MERGE : vg::GAFSorterParameters
• files_per_merge : vg::GAFSorterParameters
• filter_matches : vg::Filter
• filter_on_all : vg::ReadFilter< Read >
• filter_short_mems : vg::BaseMapper
• finished_decoding : vg::ZipCode
• first : vg::FeatureSet::Feature
• fixed_fragment_model : vg::FragmentLengthStatistics
• flank_range : vg::VariantAdder
• flat : vg::Constructor
• flat_node : haplo::haplo_DP_rectangle
• flush : hFILE_backend
• force_haplotype_count : vg::MultipathMapper
• force_phasing : vg::HaplotypeIndexer
• force_unequal : handlegraph::PathForEachSocket::iterator
• forks : vg::algorithms::kmer_t , vg::algorithms::walk_t
• FORMAT : handlegraph::PathMetadata
• format : vg::HTSWriter , vg::MultipathAlignmentEmitter
• forward : vg::Support
• forward_graph : vg::ReverseGraph
• forward_multiplier : vg::GreedyMinDistanceClusterer
• forward_only : vg::Sampler
• frac_score : vg::ReadFilter< Read >
• frag_stats : vg::Mapper
• fragl_supports : vg::BREAKPOINT
• fragment : vg::Alignment , vg::alignment_index_t , vg::MaximalExactMatch , vg::read_alignment_index_t , vg::RecombinatorHaplotype , vg::SnarlDistanceIndexClusterer::Cluster
• fragment_best_left : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
• fragment_best_right : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
• fragment_directions : vg::FragmentLengthStatistics
• fragment_distance_limit : vg::SnarlDistanceIndexClusterer::ClusteringProblem
• fragment_gap_scale : vg::MinimizerMapper
• fragment_length_cache_size : vg::FragmentLengthStatistics
• fragment_length_distr : vg::MinimizerMapper , vg::PairedEndMapper
• fragment_length_distribution : vg::Alignment
• fragment_length_warning_factor : vg::MultipathMapper
• fragment_lengths : vg::FragmentLengthStatistics
• fragment_map : vg::HaplotypePartitioner , vg::Recombinator
• fragment_max : vg::FragmentLengthStatistics
• fragment_max_graph_lookback_bases : vg::MinimizerMapper
• fragment_max_graph_lookback_bases_per_base : vg::MinimizerMapper
• fragment_max_indel_bases : vg::MinimizerMapper
• fragment_max_indel_bases_per_base : vg::MinimizerMapper
• fragment_max_min_score : vg::MinimizerMapper
• fragment_max_read_lookback_bases : vg::MinimizerMapper
• fragment_max_read_lookback_bases_per_base : vg::MinimizerMapper
• fragment_mean : vg::NGSSimulator
• fragment_min_score : vg::MinimizerMapper
• fragment_model_update_interval : vg::FragmentLengthStatistics
• fragment_next : vg::Alignment
• fragment_orientations : vg::FragmentLengthStatistics
• fragment_points_per_possible_match : vg::MinimizerMapper
• fragment_prev : vg::Alignment
• fragment_score : vg::Alignment
• fragment_score_fraction : vg::MinimizerMapper
• fragment_sd : vg::NGSSimulator
• fragment_set_score_threshold : vg::MinimizerMapper
• fragment_sigma : vg::FragmentLengthStatistics
• fragment_size : vg::FragmentLengthStatistics
• fragment_union_find : vg::SnarlDistanceIndexClusterer::ClusteringProblem
• fragments : vg::Recombinator::Statistics
• frequency : vg::MCMCGenotyper
• from : vg::Edge , vg::RecombinatorFragment , vg::Translation , vg::WFATree
• from_length : vg::Edit
• from_node_id : vg::BandedGlobalAligner< IntType >::AltTracebackStack::Deflection
• from_start : vg::Edge
• frontier : vg::IncrementalSubgraph
• frontier_copy_limit : vg::IncrementalSubgraph
• frontier_count : vg::IncrementalSubgraph
• frontier_index : vg::IncrementalSubgraph
• full_haplotypes : vg::Recombinator::Statistics
• full_length_bonus : ScoringOptions , vg::GSSWAligner
• funnel_name : vg::Funnel