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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 public API with Rule 1.0.0 and DP v2 2.0.1 deterministic paths. DP v2.1.1 2.1.1 is an explicit local-guard path; sLLM 0.2.0-preview.1 remains feature-gated. Returns CAI score, GC%, and a reviewable CDS candidate.

Key Features

1.

Automaton-constrained DP v2 feasibility design (engine 2.0.1)

2.

Explicit DP v2.1.1 local-guard path (engine 2.1.1)

3.

CAI and GC% metrics

4.

Golden Gate / MoClo-oriented Type IIS site review

5.

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
enginestringoptionalprofile | dp | dp_v2_1_1 | dp_v2_1 | slm | dual_compare

Connection

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

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