🧬

factorforge_cds_optimize

agentby Eijex
FactorForgeBiotechDNA

Converts an amino acid sequence into a synonymous coding DNA sequence (CDS) candidate for Nicotiana benthamiana-oriented design review. Uses the FactorForge v3.3.2 stable design path with the N. benthamiana NbeV1.1 high-confidence CDS-derived active default: DP feasibility design, profile-based rule scanning, Type IIS site review, and output. Returns CAI score, GC%, and a reviewable CDS candidate.

Key Features

1.

Constraint-based DP feasibility design (v3.3.2)

2.

CAI and GC% metrics

3.

Golden Gate / MoClo-oriented Type IIS site review

4.

Multiple public design profiles (balanced, high_cai, gc_target, assembly_friendly)

Use Cases

  1. 1.Plant CDS design review
  2. 2.Agroinfiltration-oriented sequence review
  3. 3.Synonymous CDS candidate generation

Parameters

NameTypeRequiredDescription
sequencestringrequiredAmino acid sequence (single-letter code)
profilestringoptionalbalanced | high_cai | gc_target | assembly_friendly

Connection

.mcp.json / MCP client settingsJSON
{
  "mcpServers": {
    "eijex": {
      "type": "http",
      "url": "https://mcp.eijex.com/api/mcp"
    }
  }
}

Related Tools