List of all items

Structs

• align::Bits
• align::CloudSearchParams
• align::CloudSearchResults
• align::Nats
• align::structs::Ad
• align::structs::AdMatrixLinear
• align::structs::AdMatrixQuadratic
• align::structs::AdMatrixSparse
• align::structs::AdOffset
• align::structs::Alignment
• align::structs::AlignmentBuilder
• align::structs::Bound
• align::structs::BoundIter
• align::structs::Boundaries
• align::structs::BoundingBox
• align::structs::Cell
• align::structs::CellStats
• align::structs::Cloud
• align::structs::CloudImage
• align::structs::DisplayStrings
• align::structs::DpMatrixFlat
• align::structs::DpMatrixSparse
• align::structs::Interval
• align::structs::RowBounds
• align::structs::ScoreParams
• align::structs::Scores
• align::structs::Seed
• align::structs::Trace
• align::structs::TraceStep
• output::output_tabular::TableFormat
• structs::hmm::Header
• structs::hmm::Hmm
• structs::hmm::Model
• structs::hmm::Stats
• structs::profile::BackgroundLoop
• structs::profile::CoreEntry
• structs::profile::CoreToCore
• structs::profile::Emission
• structs::profile::Profile
• structs::sequence::Sequence
• structs::sequence::UnknownDigitalSequenceByteError
• structs::sequence::UnknownUtf8SequenceByteError
• util::LOGSUM_LOOKUP

Enums

• align::SimpleTraceStep
• align::structs::BackgroundState
• align::structs::CloudValidity
• align::structs::CoreState
• align::structs::ImageOrientation
• align::structs::PrintMode
• align::structs::Relationship
• output::output_tabular::Field
• structs::hmm::Alphabet
• structs::profile::AminoAcid

Traits

• align::Score
• align::structs::BackgroundCellIndexable
• align::structs::BoundInterpretable
• align::structs::CloudMatrix
• align::structs::CoreCellIndexable
• align::structs::DpMatrix
• align::structs::NewDpMatrix
• output::path_buf_ext::PathBufExt
• util::CollectionPrint
• util::Float
• util::IterDebug
• util::IterPrint
• util::LogAbuse
• util::MaxAssign
• util::MinAssign
• util::Print
• util::VecMath
• util::VecUtils

Macros

• assert_eq_pairs
• log_sum
• max_f32

Functions

• align::backward
• align::cloud_score
• align::cloud_search_bwd
• align::cloud_search_fwd
• align::compute_backward_cells
• align::compute_forward_cells
• align::e_value
• align::forward
• align::needleman_wunsch
• align::null_one_score
• align::null_two_score
• align::optimal_accuracy
• align::p_value
• align::posterior
• align::traceback
• output::output_standard::write_standard_output
• util::f32_vec_argmax
• util::log_add
• util::mean_relative_entropy
• util::relative_entropy

Type Aliases

• align::structs::BackgroundCell
• align::structs::CoreCell

Constants

• alphabet::AMINO_ALPHABET
• alphabet::AMINO_ALPHABET_WITH_DEGENERATE
• alphabet::AMINO_BACKGROUND_FREQUENCIES
• alphabet::AMINO_INVERSE_MAP
• alphabet::AMINO_INVERSE_MAP_LOWER
• alphabet::AMINO_SENTINEL
• alphabet::UTF8_DASH
• alphabet::UTF8_DOT
• alphabet::UTF8_NUMERIC
• alphabet::UTF8_PIPE
• alphabet::UTF8_PLUS
• alphabet::UTF8_SPACE
• alphabet::UTF8_STAR
• alphabet::UTF8_TO_DIGITAL_AMINO
• structs::hmm::constants::HMM_DELETE_TO_DELETE
• structs::hmm::constants::HMM_DELETE_TO_MATCH
• structs::hmm::constants::HMM_INSERT_TO_INSERT
• structs::hmm::constants::HMM_INSERT_TO_MATCH
• structs::hmm::constants::HMM_MATCH_TO_DELETE
• structs::hmm::constants::HMM_MATCH_TO_INSERT
• structs::hmm::constants::HMM_MATCH_TO_MATCH