Bioinformatics Pattern Matching Engine
Sold once. One buyer acquires the complete IP outright — every line of source, every test, every audit artefact — and it is then denied to every other party. No licence, no recurring, no second buyer.
Acquire — begin due diligence →Technical Ledger
| SKU | VLA-GEN-BIO-V1.0 |
|---|---|
| Vendor | Vlaander LTD |
| Classification | Engineering Asset |
| Variant | Default Title |
| Availability | ProvisionedPASSING |
Provenance & integrity.
| Language | C++20 |
|---|---|
| Build | CMake 3.20+ · libpthread-only · deterministic |
| Sanitizers | ASan · UBSan · TSan (every push)PASSING |
| Fuzzing | libFuzzer-hardened loaderPASSING |
| Tests | unit · integration · property · FIPS-vectorPASSING |
| Reproducibility | byte-identical indexes · SHA-256 input manifestPASSING |
| Interfaces | C++20 API · stable C ABI · ctypes Python |
| Signing scheme | ed25519 signed releases |
| Signing key | Publishing 2026-Q3 |
| SHA-256 | Publishing 2026-Q3 |
| Release | Publishing 2026-Q3 |
| External audit | Publishing 2026-Q3 |
Value, in your metrics.
| Metric you track | Magnitude |
|---|---|
| Alignment reproducibility | Bit-identical index files across hosts; every index embeds a SHA-256 manifest of its input, verifiable in one command. |
| RAM on pangenome references | Up to 2.5× less than classical mode — the index scales with input similarity, not genome count. |
| Exact-search throughput | ~2,000× faster than std::string substring search; sub-microsecond per query, independent of reference size. |
| Copyleft exposure | None — ships as proprietary source with no copyleft anywhere; integrate into a closed product freely. |
| Integration surface | One stable C ABI with opaque handles and status codes; binds from any C-FFI language, Python wrapper included. |
Build-vs-buy basis.
Reproducing this in-house: approximately 15–24 engineer-months for a senior team familiar with high-performance sequence alignment, FM-index engineering, and reproducible bioinformatics tooling. At a loaded cost of $25,000 per engineer-month, that is $375,000–$600,000, or $780,000 after a 30% risk premium for scope overrun. Purchasing the source: $275,000 plus approximately 2 weeks of integration effort. Stated biases: we compare against the high end of the build estimate, apply a 30% risk premium for scope overrun, and exclude opportunity cost. Editable assumptions: engineer-months (15–24), loaded cost per month ($25,000), risk premium (30%). Flip any of these and the comparison adjusts accordingly — the model is yours to defend, not ours to dictate.
Risk allocation.
| Risk | Borne by | Basis | Buyer’s recourse |
|---|---|---|---|
| IP cleanliness | Vlaander LTD | Source warranted as original work, clean of third-party IP at point of sale. | Indemnification capped at the purchase price paid. |
| Benchmark performance | Vlaander LTD | Published numbers must reproduce on the documented hardware. 30-day inspection window from delivery. | Refund of the purchase price within the inspection window. |
| Integration into buyer’s stack | Buyer | Integration footprint published on every product page. No warranty extends to bespoke environments outside the documented targets. | Use the published footprint as the integration spec; engage Vlaander engineering at sales@vlaander.com for paid support. |
| Regulatory compliance in buyer’s jurisdiction | Buyer | Export classified EAR99. Buyer self-screens against restricted jurisdictions and parties under their own legal counsel. | Request a pre-sale export review at sales@vlaander.com — provided at no charge. |
| Vendor continuity | Buyer | No vendor can warrant its own continuation. Source delivered without licence server, kill-switch, or expiry — risk transferred to buyer by the outright-sale model. | Self-maintain in perpetuity using the delivered source; fork freely under the Sale terms. |
| Source-code escrow | Joint | Source is delivered to the buyer at sale, so escrow is structurally unnecessary. Available on request when buyer counsel mandates a third-party deposit. | Request escrow at sales@vlaander.com — buyer-funded; Vlaander participates without charge. |
| Security disclosure post-sale | Joint | Vlaander acknowledges security reports within 24 hours and honours coordinated disclosure indefinitely on shipped versions. Buyer applies remediation in their environment. | Report to sales@vlaander.com — disclosure policy published at /security. |
Scope & maturity.
- The alignment engine: exact pattern search, locate, the FM-index core, dual-mode (classical + pangenome-aware) storage, batched lockstep search, and memory-mapped indexes.
- Three coordinated interfaces — C++20 native API, stable C ABI, pure-ctypes Python — plus a CLI (build, count, locate, align, verify).
- The full test suite (unit, integration, property, FIPS-vector) green under ASan/UBSan/TSan, and a fuzz-hardened loader.
- A focused, defensible alignment core — the deliberate first-release scope.
- Paired-end alignment, MAPQ calibration, BAM output, and locate over the pangenome-aware storage mode.
- Bidirectional FM-index, long-read / RNA-seq / graph-reference variants, and hardware dispatch (AVX-512, ARM SVE, GPU).
System Abstract
A deterministic, sanitizer-clean, dependency-free C++20 sequence-alignment engine that an in-house team can drop into a pipeline and run in front of regulators the same day. Index files are bit-identical across machines and runs, and every index embeds a SHA-256 manifest of its input — a single command confirms an index was built from the FASTA you think it was.
It answers two problems the open-source incumbents don't. Reproducibility: deterministic builds and a content-hashed, versioned on-disk format that survives a regulatory audit. Scale on similar genomes: a pangenome-aware index that scales with the similarity of the input, not the number of genomes — up to 2.5× less RAM on near-identical references. Exact pattern search runs roughly 2,000× faster than the C++ standard library's substring search, sub-microsecond per query, independent of reference size.
The same engine is exposed through a C++20 native API, a stable C ABI, and a pure-ctypes Python binding, so it integrates from a Rust CLI to a Jupyter notebook to a regulated clinical pipeline. Delivered as proprietary source — engine, C ABI, Python wrapper, command-line tool, test and benchmark suites, and a fuzz-hardened loader — with no third-party runtime dependency beyond libpthread.