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Introduce primer pair searching functionality

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This change introduces the `obiprimers` command-line tool and a complete search pipeline for identifying primer pairs. It includes new data structures for pair evaluation, comprehensive search configuration options, and detailed CSV output handling for results.
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Eric Coissac committed 2026-11-03 22:40:27 +11:00
1 parent 1ab512ab5c
commit c156f11947
9 files changed
+655 -6
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pkg/obiprimer/pairs_test.go
+1 -1
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@@ -141,7 +141,7 @@ func TestPairsAgainstEcoPrimers(t *testing.T) {
t.Fatal(err)
}
lap("approximate search")
got, err := FindPairs(corpus, taxa, wm, PairParams{
got, _, err := FindPairs(corpus, taxa, wm, PairParams{
PrimerLength: 18, MinLength: 30, MaxLength: 150, ThreePrime: 2,
Sensitivity: 0.9, FalsePositive: 0.1, MinSpecificity: 0.6, Circular: true,
}, obithermo.DefaultModel())