codon-optimize
CommunityCodon-optimize protein sequences via IDT API.
Education & Research#codon-optimization#protein-sequences#codon-optimize#idt-api#dna-sequences#organism-mapping#vector-inference
Authorfarnunglab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Codon optimization automates translating protein sequences into DNA sequences optimized for expression in target hosts using IDT's API, reducing manual design time and error.
Core Features & Use Cases
- Optimize protein sequences from amino acids or NCBI accessions for expression in organisms such as insect, E. coli, mammalian, or yeast, and for vectors like 438, 1-, or pVEX.
- Accept raw sequences or accessions, with optional residue ranges and vector-based organism inference to tailor codon usage.
- Provide a CLI workflow to generate an optimized DNA sequences suitable for cloning, with configurable gene name and output formats.
Quick Start
Provide a protein sequence or accession and run the codon optimization CLI to generate an IDT-optimized DNA sequence.
Dependency Matrix
Required Modules
requestspython-dotenv
Components
scripts
💻 Claude Code Installation
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Please help me install this Skill: Name: codon-optimize Download link: https://github.com/farnunglab/benchaid/archive/main.zip#codon-optimize Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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