docs: add central-position SNP distance estimator spec

Introduces a design specification for inferring substitution rates directly from k-mers with conserved flanks. The document details a memory-efficient implementation that computes 4x4 base-pair tallies using existing MPHF structures, enabling classical corrections without de Bruijn graph materialization. Updates MkDocs navigation to include the new theory page.
2026-07-10 09:49:49 +02:00
parent 2610a4af79
commit 45df9919e5
2 changed files with 330 additions and 0 deletions
@@ -36,6 +36,7 @@ nav:
      - Entropy filter: theory/entropy.md
      - Minimizer selection: theory/minimizer.md
      - Partitioning architecture: theory/indexing.md
+      - Central-position SNP distance (discussion): theory/evolutionary_distances.md
  - Implementation:
      - SuperKmer: implementation/superkmer.md
      - Kmer: implementation/kmer.md