ZeqGenome — Sequence Analysis

Biosignals, pharmacokinetics, diagnostics, genomics — all 1.287 Hz pulse-coherent.

• Protocol ID — zeq-genome
• Category — Healthcare
• Endpoint — POST /api/health/genome/align
• Auth — api-key
• Rate limit — 10/min
• Version — 1.0
• Precision — ≤0.1% (KO42-enforced)

What it does

Genomic sequence alignment using the spectral-topological kernel K(x,x',t,t'). Maps sequence similarity through HULYAS spectral decomposition.

Signature

Request

POST /api/health/genome/align

Param	Type	Required	Default	Description
sequence	string	✓	—	DNA/RNA sequence (ACGT characters, max 10,000 bp).
reference	string		—	Reference sequence or genome ID.

Response

{ alignment, score, spectralSimilarity, mutations, coverage }

Runnable example

curl -sS -X POST \
  -H "Authorization: Bearer $ZEQ_API_KEY" \
  -H "Content-Type: application/json" \
  -d '{
  "sequence": "<value>",
  "reference": "<value>"
}' \
  "https://api.zeq.dev/api/health/genome/align"

Integrate

1. Domain solver — compose with KO42 + two additional operators from the matching family for pulse-coherent results.
2. Digital twin — pipe sensor data into this protocol every Zeqond to keep the model phase-locked with the system.
3. Alert threshold — flag results whose error_pct exceeds 0.1% as out-of-spec events for the operations layer.

Seeds

• Near — wrap /api/health/genome/align in a language SDK so builders can call it in three lines.
• Medium — publish a reference integration demonstrating ZeqGenome — Sequence Analysis alongside a real workload, with pulse-aligned metrics.
• Far — propose ZeqGenome — Sequence Analysis as an open reference standard so other runtimes can implement it verbatim against the Zeq paper.

Papers

• Zeq paper — https://doi.org/10.5281/zenodo.18158152
• Framework paper — https://doi.org/10.5281/zenodo.15825138

Middleware active. Kernel on the 1.287 Hz HulyaPulse. Awaiting next Zeqond.