Claude
541fc85e4b
feat(dna): complete SOTA genomic analysis pipeline with full test suite
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Implements a comprehensive DNA analyzer demonstrating RuVector's vector
computing capabilities for bioinformatics:
Modules (9):
- types: Core domain types (DnaSequence, Nucleotide, ProteinSequence, etc.)
- kmer: HNSW k-mer indexing with FNV-1a hashing and MinHash sketching
- alignment: Smith-Waterman local alignment with CIGAR generation
- variant: SNP calling from pileup data with genotype classification
- protein: DNA-to-protein translation with contact graph prediction
- epigenomics: Horvath clock biological age prediction from CpG methylation
- pharma: CYP2D6 star allele calling and metabolizer phenotype prediction
- pipeline: DAG-based genomic analysis orchestration
- error: Typed error handling across all modules
Testing (41 tests, 0 mocks):
- 12 k-mer integration tests (encoding, HNSW search, MinHash Jaccard)
- 17 pipeline e2e tests (alignment, variant calling, pharmacogenomics)
- 12 security tests (buffer overflow, path traversal, concurrency, bounds)
Benchmarks: Criterion suite for kmer, alignment, variant, protein, pipeline
Binary: 7-stage demo (sequence gen, k-mer search, alignment, variant
calling, protein analysis, epigenomics, pharmacogenomics)
https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
2026-02-11 04:29:28 +00:00
Claude
fc6818f54b
feat(dna): optimize all 12 ADRs + add DDD docs, README
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All ADRs updated with:
- Implementation Status sections (Working/Buildable/Research)
- SOTA algorithm references with citations
- Crate API mappings to actual RuVector functions
- Concrete performance math and targets
New documents:
- ADR-011: Performance targets and benchmark suite (755 lines)
- ADR-012: Genomic security and privacy (596 lines)
- DDD Bounded Context Map (602 lines)
- DDD Domain Model with Rust types (1,047 lines)
- README with features, comparisons, QuickStart (541 lines)
9,326 lines of architecture documentation total.
https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
2026-02-11 04:02:06 +00:00
Claude
b1af4f0ab2
feat(dna): scaffold DNA analyzer example with claude-flow init
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- Initialize claude-flow v3 with hierarchical-mesh swarm (15 agents)
- Create examples/dna/ directory structure for ADR/DDD documents
- Update .claude/ agents, helpers, settings, and skills from init --force
- 15-agent swarm actively producing ADR-001 through ADR-012 and DDD docs
https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
2026-02-11 00:25:19 +00:00
