#include <index_registry.hpp>
A struct namespace for global handling of parameters used by the IndexRegistry
◆ MutableGraphImplementation
Enumerator |
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HashGraph | |
PackedGraph | |
VG | |
◆ Verbosity
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◆ bidirectional_haplo_tx_gbwt
bool vg::IndexingParameters::bidirectional_haplo_tx_gbwt = false |
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◆ downsample_context_length
int vg::IndexingParameters::downsample_context_length = gbwtgraph::PATH_COVER_DEFAULT_K |
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◆ downsample_threshold
int vg::IndexingParameters::downsample_threshold = 3 |
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◆ gbwt_insert_batch_size
int64_t vg::IndexingParameters::gbwt_insert_batch_size = gbwt::DynamicGBWT::INSERT_BATCH_SIZE |
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◆ gbwt_insert_batch_size_increase_factor
int vg::IndexingParameters::gbwt_insert_batch_size_increase_factor = 10 |
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◆ gbwt_sampling_interval
int vg::IndexingParameters::gbwt_sampling_interval = gbwt::DynamicGBWT::SAMPLE_INTERVAL |
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◆ gcsa_doubling_steps
int vg::IndexingParameters::gcsa_doubling_steps = gcsa::ConstructionParameters::DOUBLING_STEPS |
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◆ gcsa_initial_kmer_length
int vg::IndexingParameters::gcsa_initial_kmer_length = gcsa::Key::MAX_LENGTH |
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◆ gcsa_size_limit
int64_t vg::IndexingParameters::gcsa_size_limit = 2ll * 1024ll * 1024ll * 1024ll * 1024ll |
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◆ gff_feature_name
string vg::IndexingParameters::gff_feature_name = "exon" |
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◆ gff_transcript_tag
string vg::IndexingParameters::gff_transcript_tag = "transcript_id" |
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◆ giraffe_gbwt_downsample
int vg::IndexingParameters::giraffe_gbwt_downsample = gbwtgraph::LOCAL_HAPLOTYPES_DEFAULT_N |
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◆ max_memory_proportion
double vg::IndexingParameters::max_memory_proportion = 0.75 |
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◆ max_node_size
int vg::IndexingParameters::max_node_size = 32 |
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◆ minimizer_k
int vg::IndexingParameters::minimizer_k = 29 |
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◆ minimizer_s
int vg::IndexingParameters::minimizer_s = 18 |
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◆ minimizer_w
int vg::IndexingParameters::minimizer_w = 11 |
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◆ mut_graph_impl
◆ path_cover_depth
int vg::IndexingParameters::path_cover_depth = gbwtgraph::PATH_COVER_DEFAULT_N |
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◆ pruning_max_edge_count
int vg::IndexingParameters::pruning_max_edge_count = 3 |
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◆ pruning_max_node_degree
int vg::IndexingParameters::pruning_max_node_degree = 128 |
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◆ pruning_max_node_degree_decrease_factor
double vg::IndexingParameters::pruning_max_node_degree_decrease_factor = 0.75 |
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◆ pruning_min_component_size
int vg::IndexingParameters::pruning_min_component_size = 33 |
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◆ pruning_walk_length
int vg::IndexingParameters::pruning_walk_length = 24 |
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◆ pruning_walk_length_increase_factor
double vg::IndexingParameters::pruning_walk_length_increase_factor = 1.5 |
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◆ thread_chunk_inflation_factor
double vg::IndexingParameters::thread_chunk_inflation_factor = 2.0 |
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◆ use_bounded_syncmers
bool vg::IndexingParameters::use_bounded_syncmers = false |
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◆ verbosity
The documentation for this struct was generated from the following files: