benchos-codon-optimize

name	benchos-codon-optimize
description	Codon optimize DNA or protein sequences for expression using the BenchOS-managed IDT integration. Use when the user asks to codon optimize for insect, E. coli, mammalian, yeast, or vector-specific expression.
license	Proprietary
compatibility	Requires BenchOS agent runtime with `labbook_cli`, `benchos-cli`, and server-side IDT credentials.
metadata	{"author":"benchos","version":"1"}
allowed-tools	labbook_cli

BenchOS Codon Optimize

Use this skill when the user wants a codon-optimized sequence through the BenchOS-managed IDT integration.

Quick Rules

• Accept either a raw sequence or an NCBI protein accession.
• Require either an explicit organism or a vector that implies one.
• Report the optimized DNA, GC content, and any complexity summary returned by IDT.

Command Patterns

Optimize from accession

{"args":["codon-optimize","--accession","NP_003161","--organism","insect","--name","SUPT6H"]}

Optimize from raw sequence using vector inference

{"args":["codon-optimize","--sequence","MKTLLLTLVVV","--vector","438-C","--name","MyConstruct"]}