Struct MatchScore 

pub struct MatchScore {

    pub composite: f64,
    pub confidence: Confidence,
    pub exact_matches: usize,
    pub name_length_matches: usize,
    pub md5_conflicts: usize,
    pub unmatched: usize,
    pub match_quality: f64,
    pub coverage_score: f64,
    pub order_score: f64,
    pub order_preserved: bool,
    pub md5_jaccard: f64,
    pub name_length_jaccard: f64,
    pub md5_query_coverage: f64,
    pub name_length_query_coverage: f64,
}

Detailed similarity scores between a query and a reference

Fields

composite: f64

Weighted composite score (the primary ranking metric)

confidence: Confidence

Confidence level derived from score

exact_matches: usize

Number of contigs with exact match (name+length+MD5 all match)

name_length_matches: usize

Number of contigs with name+length match but no MD5 available (neutral)

md5_conflicts: usize

Number of contigs with name+length match but MD5 conflicts (different sequence!)

unmatched: usize

Number of contigs with no match found

match_quality: f64

Per-contig match score: (exact + neutral + 0.1*conflicts) / total

coverage_score: f64

Coverage score: good_matches / reference_contigs

order_score: f64

Fraction of contigs in correct relative order

order_preserved: bool

Are matched contigs in the same order?

md5_jaccard: f64

Jaccard similarity of MD5 sets: |intersection| / |union|

name_length_jaccard: f64

Jaccard similarity of (normalized_name, length) pairs

md5_query_coverage: f64

Fraction of query contigs matched by MD5

name_length_query_coverage: f64

Fraction of query contigs matched by name+length

Implementations

impl MatchScore

pub fn calculate(query: &QueryHeader, reference: &KnownReference) -> Self

Calculate match score between query and reference

Uses the new contig-based scoring algorithm:

• Classifies each query contig as Exact, NameLengthNoMd5, Md5Conflict, or Unmatched
• Exact and NameLengthNoMd5 get full credit (1.0)
• Md5Conflict gets heavy penalty (0.1 credit - name is right but sequence is wrong)
• Unmatched gets no credit

Composite = 70% match_quality + 20% coverage_score + 10% order_score

pub fn calculate_with_weights( query: &QueryHeader, reference: &KnownReference, weights: &ScoringWeights, ) -> Self

Calculate match score with custom scoring weights

Uses the new contig-based scoring algorithm with configurable weights:

• contig_match_weight: Weight for per-contig match score (default 70%)
• coverage_weight: Weight for reference coverage (default 20%)
• order_weight: Weight for contig ordering (default 10%)
• conflict_penalty: Credit given to MD5 conflicts (default 0.1 = 10%)

Trait Implementations

impl Clone for MatchScore

fn clone(&self) -> MatchScore

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.

impl Debug for MatchScore

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.