Eric Coissac 45df9919e5 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

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encoding.md

refactor: update core types and add approximate evidence support

2026-05-26 10:04:25 +02:00

encoding.refs.md

docs: add coverage reference files and flag architectural drift

2026-05-23 13:44:23 +02:00

entropy.md

refactor: remove equivalence class folding from entropy pipeline

2026-07-08 19:36:30 +02:00

entropy.refs.md

refactor: remove equivalence class folding from entropy pipeline

2026-07-08 19:36:30 +02:00

evolutionary_distances.md

docs: add central-position SNP distance estimator spec

2026-07-10 09:49:49 +02:00

indexing.md

first implementation but far to be optimal

2026-04-19 12:17:16 +02:00

indexing.refs.md

docs: add coverage reference files and flag architectural drift

2026-05-23 13:44:23 +02:00

minimizer.md

🔧 Replace degenerate minimizer logic with hash-based random ordering

2026-04-27 20:19:43 +02:00

minimizer.refs.md

docs: add coverage reference files and flag architectural drift

2026-05-23 13:44:23 +02:00