List of all items

Structs

• bgzf::ParallelBgzfReader
• buckets::BucketContainers
• buckets::BucketEmitStats
• buckets::BucketEmitter
• buckets::BucketHeader
• buckets::BucketManifestEntry
• buckets::BucketPackedRecord
• buckets::BucketReader
• buckets::BucketRecord
• buckets::BucketRecords
• buckets::BucketStore
• buckets::ContainerManifestHeader
• buckets::SharedBucketEmitter
• buckets::SharedBucketSink
• color::ColorRepositoryManifest
• color::ColorRunSidecar
• color::ColorRunSidecarWriter
• color::ColorRunStreamReader
• color::ConcurrentColorRepository
• color::ConcurrentColorRunSidecarWriter
• colored::ColoredBuildStats
• discontinuity::DiagonalCompression
• discontinuity::DiagonalCompressionStats
• discontinuity::DiscontinuityEdge
• discontinuity::DiscontinuityEndpoint
• discontinuity::DiscontinuityInputStats
• discontinuity::DiscontinuityInputs
• discontinuity::DiscontinuityUnitig
• discontinuity::EdgePathInfo
• discontinuity::ExternalDiscontinuityInputs
• discontinuity::FullSerialContractionStats
• discontinuity::FullSerialDiscontinuityContraction
• discontinuity::OwnedDiscontinuityUnitig
• discontinuity::PartitionContraction
• discontinuity::PartitionContractionStats
• discontinuity::PathInfo
• discontinuity::SerialCollation
• discontinuity::SerialCollationStats
• discontinuity::SerialComponent
• discontinuity::SerialContraction
• discontinuity::SerialContractionStats
• discontinuity::SerialDiscontinuityContractor
• discontinuity::SerialDiscontinuityExpander
• discontinuity::SerialEdgeMatrix
• discontinuity::SerialEdgeMatrixStats
• discontinuity::SerialExpansion
• discontinuity::SerialExpansionStats
• discontinuity::SerialMetaVertex
• discontinuity::SerialUncoloredCollator
• discontinuity::VertexPathInfo
• hash::FastHasher
• input::BorrowedSequenceFragment
• input::SequenceFragment
• kmer::Kmer
• minimizer::Minimizer
• params::BuildParams
• partition::PartitionEmissionStats
• partition::PartitionStats
• partition::WeakSuperKmer
• state::ColorCoordinate
• state::EdgeFrequency
• state::UnitigColor
• state::VertexState
• subgraph::ColoredLocalUnitig
• subgraph::DenseLocalVertexMap
• subgraph::LocalEdge
• subgraph::LocalSubgraph
• subgraph::LocalSubgraphStats
• subgraph::LocalUnitig
• subgraph::LocalUnitigColorRun
• uncolored::UncoloredBuildStats

Enums

• GraphInput
• Side
• buckets::BucketError
• buckets::BucketLocation
• color::ColorError
• colored::ColoredBuildError
• discontinuity::DiscontinuityInputError
• discontinuity::MatrixEndpoint
• discontinuity::SerialCollationError
• discontinuity::SerialEdgeMatrixError
• dna::Base
• input::InputError
• kmer::KmerError
• params::ParamError
• partition::PartitionError
• partition::PartitionRunError
• subgraph::LocalSubgraphError
• subgraph::LocalVertexMap
• uncolored::UncoloredBuildError

Functions

• bgzf::is_bgzf
• buckets::bucket_dir
• buckets::coalesce_bucket_manifest
• buckets::coalesce_bucket_manifest_with_threads
• buckets::read_container_manifest
• buckets::read_manifest
• buckets::write_container_manifest
• buckets::write_manifest
• color::append_color_runs
• color::reverse_color_runs
• color::reverse_color_runs_in_place
• color::rotate_cycle_color_runs
• colored::build_colored_from_buckets
• configure_global_parallelism
• default_threads
• default_work_dir
• discontinuity::emit_colored_external_discontinuity_inputs_with_threads_in_dir
• discontinuity::emit_uncolored_discontinuity_inputs
• discontinuity::emit_uncolored_discontinuity_inputs_with_threads
• discontinuity::emit_uncolored_discontinuity_inputs_with_threads_in_dir
• discontinuity::emit_uncolored_external_discontinuity_inputs_with_threads_in_dir
• discontinuity::raise_open_file_limit
• discontinuity::report_process_memory
• discontinuity::trim_process_allocations
• dna::ascii_base_bits
• dna::ascii_complement_bits
• dna::complement_ascii
• dna::is_dna_ascii
• dna::valid_ascii_base_bits
• hash::fast_u64_hash
• hash::hash_bytes
• hash::hash_two_u64
• hash::hash_u64
• hash::wyhash_u64
• input::expand_input_paths
• input::normalized_fragment_seq
• input::parse_fragments
• input::parse_fragments_borrowed
• input::parse_fragments_borrowed_with
• minimizer::canonical_minimizer
• minimizer::encode_lmer_ascii
• minimizer::minimizer
• partition::emit_weak_superkmer_buckets
• partition::partition_fragment
• partition::partition_inputs
• partition::source_hash
• state::hash_combine
• state::source_hash
• uncolored::build_uncolored_from_buckets
• uncolored::build_uncolored_with_debug_global_contractor
• uncolored::build_uncolored_with_serial_discontinuity_pipeline

Type Aliases

• hash::FastBuildHasher

Constants

• DEFAULT_ATLAS_COUNT
• DEFAULT_CUTOFF_READS
• DEFAULT_CUTOFF_REFS
• DEFAULT_GMTIG_BUCKETS
• DEFAULT_GRAPHS_PER_ATLAS
• DEFAULT_K
• DEFAULT_LMTIG_BUCKETS
• DEFAULT_MINIMIZER_LEN
• DEFAULT_SUBGRAPH_COUNT
• DEFAULT_VERTEX_PARTITIONS
• MAX_K
• MAX_MINIMIZER_LEN
• bgzf::PROBE_BYTES
• discontinuity::DISCONTINUITY_PARALLELIZATION_OPPORTUNITIES
• dna::ASCII_BASE_BITS
• dna::ASCII_COMPLEMENT
• dna::INVALID_BASE_BITS
• params::_DEFAULT_CUTOFFS_FOR_DOCS