gRNAde MCP Server

{ "_description": "Configuration for Batch RNA Design Pipeline", "_source": "Extracted from examples/use_case_4_batch_design_pipeline_fixed.py", "design": { "n_designs_per_target": 100, "total_samples": 1000, "batch_size": 32 }, "processing": { "max_workers": null, "parallel_processing": true, "timeout_per_target": 1800 }, "evaluation": { "enabled": true, "metrics": ["openknot_score", "sc_score_ribonanzanet", "sc_score_ribonanzanet_ss"], "include_basic_stats": true }, "filtering": { "enabled": true, "min_score_threshold": 0.1, "max_results_per_target": 10, "gc_content_range": [0.2, 0.8], "length_tolerance_std": 2 }, "output": { "save_intermediate": true, "format": "csv", "include_metadata": true, "create_summary": true }, "pipeline_phases": { "design_generation": { "required": true, "description": "Generate RNA sequences for each target" }, "evaluation": { "required": false, "description": "Evaluate sequences using computational metrics" }, "filtering_ranking": { "required": false, "description": "Filter and rank designs by quality scores" } }, "target_validation": { "required_fields": ["name"], "auto_correct_mode": true, "skip_invalid": true } }