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

- p -

p_value_memo : vg::MultipathMapper
pack_names : vg::Viz
packer : vg::PackedTraversalSupportFinder
packs : vg::Viz
pad_cluster_score_threshold : vg::MinimizerMapper
pad_suspicious_anchors_to_length : vg::Surjector
pad_zipcode_tree_score_threshold : vg::MinimizerMapper
pair_rescue_hang_threshold : vg::Mapper
pair_rescue_retry_threshold : vg::Mapper
paired_distance_stdevs : vg::MinimizerMapper
paired_rescue_score_limit : vg::MinimizerMapper
params : MinimizerConfig
parent : vg::SnarlManager::SnarlRecord, vg::TreeNode< T >, vg::VectorView< Item >::const_iterator, vg::WFANode
parent_chain : vg::SnarlManager::SnarlRecord
parent_chain_index : vg::SnarlManager::SnarlRecord
parent_chains : vg::SnarlDistanceIndexClusterer::ClusteringProblem
parent_depth : vg::MIPayload
parent_directory : vg::temp_file::Handler
parent_graph : vg::JoinedSpliceGraph
parent_handle : vg::MIPayload
parent_is_chain : vg::MIPayload
parent_is_root : vg::MIPayload
parent_net_handle : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
parent_record_offset : vg::MIPayload
parent_snarls : vg::SnarlDistanceIndexClusterer::ClusteringProblem
parent_type : vg::MIPayload
parse_only : GBWTConfig
partitioner_parameters : HaplotypesConfig
pass_number : vg::algorithms::GFAFormatError
passed_filters : vg::Funnel::Item
passed_statistics : vg::Funnel::Item
passing : vg::Funnel::FilterPerformance
passing_correct : vg::Funnel::FilterPerformance
past_end : vg::GraphSynchronizer::Lock
patch_alignments : vg::Mapper
path : vg::algorithms::walk_t, vg::CompletedTranscriptPath, vg::EditedTranscriptPath, vg::GaplessExtension, vg::MatchPos, vg::PathNode, vg::RecombinatorHaplotype, vg::WFAAlignment, vg::WFANode
path_collapse_type : vg::Transcriptome
path_component_index : vg::MultipathMapper, vg::PathOrientedDistanceMeasurer
path_cover : GBWTConfig
path_cover_depth : vg::IndexingParameters
PATH_FIELD : vg::GAFSorterRecord
path_finder : vg::VCFTraversalFinder
path_graph : GraphHandler, vg::MinimizerMapper, vg::PhaseUnfolder
path_handle : vg::SequenceDictionaryEntry
path_indexes : vg::LegacyCaller
path_jaccard_window : vg::Deconstructor
path_length : vg::SequenceDictionaryEntry
path_listeners : vg::algorithms::GFAParser
path_mode : GBWTConfig
path_name : vg::algorithms::GFAzParser::PendingRGFAVisit, vg::FeatureSet::Feature, vg::GraphSynchronizer::Lock, vg::SequenceDictionaryEntry
path_names : GBWTConfig, vg::VariantAdder
path_nodes : vg::MultipathAlignmentGraph
path_offset : vg::GraphSynchronizer::Lock
path_output : GBWTConfig
path_position_handle_graph : vg::MCMCCaller
path_rank : vg::algorithms::GFAzParser::PendingRGFAVisit
path_sampler : vg::NGSSimulator, vg::Sampler
path_subset : vg::PathSubgraphOverlay
path_to_ploidy : vg::VCFGenotyper
path_to_vcf : vg::HaplotypeIndexer
path_trav_finder : vg::Deconstructor
paths : job_type, vg::algorithms::TracedScore, vg::PathTraversalFinder, vg::SnarlDistanceIndexClusterer::Seed, vg::SurjectingAlignmentEmitter, vg::VG
payload : vg::SnarlDistanceIndexClusterer::SeedCache
PAYLOAD_KEY : vg::MinimizerIndexParameters
payload_node_length : vg::SnarlDistanceIndexClusterer::SeedCache
payload_prefix_sum : vg::SnarlDistanceIndexClusterer::SeedCache
pending_rgfa_visits : vg::algorithms::GFAzParser
pending_traversals : vg::ZipCodeTree::distance_iterator
per_base : vg::WFAExtender::ErrorModel::Event
perfect_pair_identity_threshold : vg::FragmentLengthStatistics
peripheral_attachments : vg::GraphSynchronizer::Lock
periphery : vg::GraphSynchronizer::Lock
permutation_idx : vg::ShuffledPairs::iterator
permuted : vg::ShuffledPairs::iterator
pessimistic_gap_memo : vg::MultipathMapper
pessimistic_gap_multiplier : vg::MultipathMapper
pessimistic_tail_gap_memo : vg::MultipathAlignmentGraph
phase : vg::GFFRecord
phase_homozygous : vg::HaplotypeIndexer
phase_visits : vg::VG::Plan
phred_prob : vg::NGSSimulator
pinned_tail_size : vg::VariantAdder
plausible_rescue_cluster_coverage_diff : vg::MultipathMapper
pointer : vg::SmallBitset
points : vg::algorithms::Anchor
polyploid_prior_success_logprob : vg::Genotyper
population_max_paths : vg::MultipathMapper
population_paths_hard_cap : vg::MultipathMapper
population_size : haplo::haploMath::RRMemo
pos : vg::ChainIterator, vg::KmerPosition, vg::SnarlDistanceIndexClusterer::Seed, vg::VCFOutputCaller::SuppressedRef, vg::ZipCodeTree::distance_iterator
pos_to_trans : vg::Translator
position : vg::algorithms::GFAFormatError, vg::RecombinatorHaplotype
position_chromosome : vg::Primer
position_file : vg::NGSSimulator
position_template : vg::Primer
positions : vg::AlignmentChainModel, vg::AlignmentChainModelVertex, vg::MaximalExactMatch, vg::MEMChainModel
possible_scores : vg::WFATree
posterior : vg::PoissonSupportSnarlCaller::PoissonCallInfo
precollapse_order_length_hits : vg::BaseMapper
prefilter_redundant_hits : vg::BaseMapper
prefix : vg::BitStringTree< Item >::TreeNode
prefix_length : vg::MultipathProblem
prefix_score : vg::MultipathProblem
prefix_sum : vg::MIPayload, vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem::SnarlTreeChild
prefix_sum_or_identifier : vg::ZipCode::node_code_t, vg::ZipCode::snarl_code_t
prefix_sum_value : vg::SnarlDistanceIndexClusterer::SnarlTreeNodeProblem
prefixes : vg::PhaseUnfolder
present : vg::SnarlDistanceIndexClusterer::Cluster
PRESENT_DISCOUNT : vg::Recombinator
present_discount : vg::Recombinator::Parameters
preserve_sinks : vg::DozeuPinningOverlay
prev : vg::AlignmentChainModelVertex, vg::MEMChainModelVertex, vg::PhasedGenome::HaplotypeNode
prev_char : vg::kmer_t
prev_chars : vg::KmerPosition
prev_cost : vg::AlignmentChainModelVertex, vg::MEMChainModelVertex
prev_pos : vg::kmer_t
prev_stage_items : vg::Funnel::Item
prev_subpath : vg::MultipathProblem
previous_index : haplo::haplo_DP_rectangle
previous_sizes : haplo::haplo_DP_column
previous_sum : haplo::haplo_DP_column
previous_values : haplo::haplo_DP_column
primary : vg::MaximalExactMatch, vg::subcommand::NegationFlagArgSpec< Receiver >
primitive_root : vg::ShuffledPairs
print_updates : vg::VariantAdder
priority : vg::subcommand::Subcommand
prng : vg::NGSSimulator::MarkovDistribution< From, To >
prngs : vg::NGSSimulator
prob_sampler : vg::NGSSimulator
problem : vg::AlignmentValidity
produces_one_gbwt : GBWTConfig
progress : ChainsConfig, MinimizerConfig, vg::GAFSorterParameters, vg::MinimizerIndexParameters, vg::Progressive
progress_bars : vg::VGset
progress_count : vg::Progressive
progress_message : vg::Progressive
progress_seen : vg::Progressive
projected_count : vg::Funnel::Stage
provided_directly : vg::IndexFile
prune_low_cplx : GiraffeMainOptions
prune_subpaths_multiplier : vg::MultipathMapper
prune_suspicious_anchors : vg::Surjector
pruning_max_edge_count : vg::IndexingParameters
pruning_max_node_degree : vg::IndexingParameters
pruning_max_node_degree_decrease_factor : vg::IndexingParameters
pruning_min_component_size : vg::IndexingParameters
pruning_walk_length : vg::IndexingParameters
pruning_walk_length_increase_factor : vg::IndexingParameters