CodonForge v0.1.0

CodonForge v0.1.0

Initial public research preview of CodonForge.

Included

• Greedy highest-frequency human codon optimizer
• Protein FASTA and stdin input
• Pure mRNA FASTA output via --fasta-out
• LinearDesign-style stdout for benchmark compatibility
• CAI computation
• Protein-fidelity validation by RNA translation
• Rust CI: fmt, clippy, tests, docs, and publish dry-run
• Data provenance notes, citation metadata, examples, and contribution/security docs

Limitations

• Greedy CAI optimizer only
• No LinearDesign algorithm parity
• No Turner energy model
• No internal MFE calculation
• No GPU acceleration
• Computational research software only; no clinical, diagnostic, or therapeutic claims

Verification

The release commit passed GitHub Actions CI:

• cargo fmt
• cargo clippy
• cargo test
• cargo doc
• cargo publish --dry-run