List of all items

Structs

• adapters::cluster::Cluster
• cli::Args
• config::ClusterParams
• console::Console
• io::Record
• pipeline::Args
• pipeline::stages::io_auto::Rec
• pipeline::stages::signatures::SigShape
• pipeline::stages::signatures::SigVecs
• pipeline::stages::strict::ClusterResult
• pipeline::stages::strict::StrictParams
• pipeline::strict::ClusterResult
• pipeline::strict::StrictParams
• profiling::Profiler
• profiling::Span
• validate::Prepared

Enums

• cli::Mode
• config::Alphabet
• config::RunMode

Functions

• adapters::clstr::write_clstr
• adapters::cluster::cluster_one_set
• adapters::lsh::build_lsh_index
• adapters::lsh::pick_lsh_shape
• adapters::lsh::query_candidates
• io::read_all
• kmer::aa_kmer_hash
• kmer::encode_canonical_kmer
• kmer::nuc_kmer_code
• pipeline::run
• pipeline::stages::clusterer::cluster_assign_first_match_k_dyn_lsh
• pipeline::stages::clusterer::finalize_clusters_cd_hit_like
• pipeline::stages::clusterer::greedy_cluster_one_set
• pipeline::stages::io_auto::read_all_auto
• pipeline::stages::kdx_gate::default_kdx_path
• pipeline::stages::kdx_gate::open_kdx_if_exists
• pipeline::stages::lsh_gate::expected_jaccard_from_identity_k
• pipeline::stages::lsh_gate::min_collisions_scaled_k
• pipeline::stages::lsh_gate::query_candidates_relaxed
• pipeline::stages::signatures::build_signatures_and_shape
• pipeline::stages::signatures::detect_alphabet
• pipeline::stages::simd::identity_and_coverages_banded
• pipeline::stages::stats::basic_len_stats
• pipeline::stages::stats::write_representatives_fasta
• pipeline::stages::strict::cd_hit_word_len
• pipeline::stages::strict::cluster_strict_greedy
• pipeline::stages::strict::identity_and_coverages
• pipeline::stages::strict::identity_and_coverages_thresholded
• pipeline::stages::strict::revcomp
• pipeline::stages::verify::coverage_pass
• pipeline::stages::verify::identity_best_with_strand
• pipeline::stages::verify::identity_no_gaps_best
• pipeline::stages::verify::revcomp_dna
• pipeline::strict::cd_hit_word_len
• pipeline::strict::cluster_strict_greedy
• pipeline::strict::identity_and_coverages
• pipeline::strict::identity_and_coverages_thresholded
• pipeline::strict::revcomp
• profiling::maybe_init
• profiling::prof
• util::normalize_threads
• validate::prepare
• validate::resolve_word_len