BioNext-mcp
Server Configuration
Describes the environment variables required to run the server.
| Name | Required | Description | Default |
|---|---|---|---|
| PROJECT_PATH | Yes | Path to your analysis directory where results are saved. Set in the env of the MCP server configuration. |
Instructions
Guidance the server publishes about itself, which clients place ahead of the tool catalog so the model reads it before choosing anything.
This server publishes no instructions, or was last inspected before Glama recorded them.
Capabilities
Features and capabilities supported by this server
Protocol revision2025-11-25
| Capability | Details |
|---|---|
| tools | {} |
Tools
Functions exposed to the LLM to take actions
| Name | Description |
|---|---|
| analyze_bioinformatics_taskB | Analyze user intent and create a bioinformatics workflow plan. This tool helps understand your analysis goals and prepares the workflow structure. After this, ask Claude to generate Python scripts (≤100 lines each), then use execute_claude_script to run them. |
| debug_workflowC | Analyze workflow execution results and provide debugging insights |
| execute_claude_scriptA | 🚀 MAIN TOOL: Automatically detect and execute Python scripts generated by Claude LLM for bioinformatics tasks. Features: ✅ Auto-detects Python installation ✅ Provides detailed installation guide if Python missing ✅ Auto-installs required packages (pandas, numpy, biopython, etc.) ✅ Full execution logging and error handling ✅ Script length monitoring (recommends ≤100 lines) ✅ HTML report generation with auto-browser opening |
Prompts
Interactive templates invoked by user choice
| Name | Description |
|---|---|
No prompts | |
Resources
Contextual data attached and managed by the client
| Name | Description |
|---|---|
No resources | |
TDQS
Scored across 3 tools
Each tool has a clearly distinct purpose: planning analysis (analyze_bioinformatics_task), executing scripts (execute_claude_script), and debugging (debug_workflow). No functional overlap.
All tool names follow a consistent verb_noun snake_case pattern (e.g., analyze_bioinformatics_task, debug_workflow, execute_claude_script), making them predictable.
With only 3 tools, the set is well-scoped for its bioinformatics workflow automation purpose—each tool is essential and not excessive.
The tools cover planning, execution, and debugging—the core workflow. Minor gap: no explicit data retrieval or result analysis tool, but execution report generation partially addresses this.