factorforge-cds 3.1.1

FactorForge — open-source constraint-based CDS design engine by Eijex.

FactorForge

Open-source constraint-based CDS design engine for Nicotiana benthamiana expression workflows.

FactorForge optimizes protein sequences into N. benthamiana-compatible CDS by maximizing CAI, controlling GC content, eliminating PolyA signals, and producing MoClo/Golden Gate-ready constructs.

→ Full Documentation

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Quick Start

pip install factorforge-cds
factorforge optimize my_protein.fasta -o output.fasta

Or use the web app — no installation required.

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Access Options

Method	Description	Link
Web App	No installation, demo & light use	factorforge-cds.vercel.app
CLI / Python	Local use, batch processing, data privacy	pip install factorforge-cds
Docker	Full web interface locally	docker pull ghcr.io/eijex/factorforge-cds:latest

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⚠️ Validation Status

FactorForge predictions are in-silico only and have not been experimentally validated in wet-lab conditions. See Validation and VALIDATION.md.

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Citing

FactorForge v3.1.1 (2026). Open-source constraint-based CDS design engine.
Eijex. https://github.com/eijex/factorforge-cds

A citable publication is in preparation.

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License

Apache License 2.0 — see LICENSE.

Disclaimer: FactorForge is provided for research purposes only. Predictions are computational and have not been experimentally validated.

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Get in Touch

• Docs — eijex.github.io/factorforge-cds
• Wet-lab Results — Submit via Google Form (recommended) or GitHub Issue
• GitHub Issues — bugs, features: github.com/eijex/factorforge-cds/issues
• Email — [e-mail]
• Web — factorforge-cds.vercel.app