genetic-counseling-report

Genetic Counseling Variant Report - Generate variant report for genetic counseling: VEP, ClinVar, gene phenotype, and literature evidence. Use this skill for clinical genetics tasks involving get vep hgvs clinvar search get phenotype gene pubmed search. Combines 4 tools from 2 SCP server(s).

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Repository: SpectrAI-Initiative/InnoClaw
Letzte Quellaktivität: 1. April 2026 um 17:03
Erkannte Sprache von SKILL.md: Englisch
Sterne: 390
Forks: 28

Installationsoptionen

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npx skills add https://github.com/SpectrAI-Initiative/InnoClaw --skill genetic-counseling-report

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SKILL.md

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name	genetic_counseling_report
description	Genetic Counseling Variant Report - Generate variant report for genetic counseling: VEP, ClinVar, gene phenotype, and literature evidence. Use this skill for clinical genetics tasks involving get vep hgvs clinvar search get phenotype gene pubmed search. Combines 4 tools from 2 SCP server(s).

Genetic Counseling Variant Report

Discipline: Clinical Genetics | Tools Used: 4 | Servers: 2

Description

Generate variant report for genetic counseling: VEP, ClinVar, gene phenotype, and literature evidence.

Tools Used

get_vep_hgvs from ensembl-server (streamable-http) - https://scp.intern-ai.org.cn/api/v1/mcp/12/Origene-Ensembl
clinvar_search from search-server (streamable-http) - https://scp.intern-ai.org.cn/api/v1/mcp/7/Origene-Search
get_phenotype_gene from ensembl-server (streamable-http) - https://scp.intern-ai.org.cn/api/v1/mcp/12/Origene-Ensembl
pubmed_search from search-server (streamable-http) - https://scp.intern-ai.org.cn/api/v1/mcp/7/Origene-Search

Workflow

Predict variant effect with VEP
Search ClinVar significance
Get gene-phenotype associations
Search PubMed for clinical evidence

Test Case

Input

{
    "hgvs":

import asyncio import json from contextlib import AsyncExitStack from mcp import ClientSession from mcp.client.streamable_http import streamablehttp_client from mcp.client.sse import sse_client SERVERS = { "ensembl-server": "https://scp.intern-ai.org.cn/api/v1/mcp/12/Origene-Ensembl", "search-server": "https://scp.intern-ai.org.cn/api/v1/mcp/7/Origene-Search" } async def connect(url, stack): transport = streamablehttp_client(url=url, headers={"SCP-HUB-API-KEY": "sk-b04409a1-b32b-4511-9aeb-22980abdc05c"}) read, write, _ = await stack.enter_async_context(transport) ctx = ClientSession(read, write) session = await stack.enter_async_context(ctx) await session.initialize() return session def parse(result): try: if hasattr(result, 'content') and result.content: c = result.content[0] if hasattr(c, 'text'): try: return json.loads(c.text) except: return c.text return str(result) except: return str(result) async def main(): async with AsyncExitStack() as stack: # Connect to required servers sessions = {} sessions["ensembl-server"] = await connect("https://scp.intern-ai.org.cn/api/v1/mcp/12/Origene-Ensembl", stack) sessions["search-server"] = await connect("https://scp.intern-ai.org.cn/api/v1/mcp/7/Origene-Search", stack) # Execute workflow steps # Step 1: Predict variant effect with VEP result_1 = await sessions["ensembl-server"].call_tool("get_vep_hgvs", arguments={}) data_1 = parse(result_1) print(f"Step 1 result: {json.dumps(data_1, indent=2, ensure_ascii=False)[:500]}") # Step 2: Search ClinVar significance result_2 = await sessions["search-server"].call_tool("clinvar_search", arguments={}) data_2 = parse(result_2) print(f"Step 2 result: {json.dumps(data_2, indent=2, ensure_ascii=False)[:500]}") # Step 3: Get gene-phenotype associations result_3 = await sessions["ensembl-server"].call_tool("get_phenotype_gene", arguments={}) data_3 = parse(result_3) print(f"Step 3 result: {json.dumps(data_3, indent=2, ensure_ascii=False)[:500]}") # Step 4: Search PubMed for clinical evidence result_4 = await sessions["search-server"].call_tool("pubmed_search", arguments={}) data_4 = parse(result_4) print(f"Step 4 result: {json.dumps(data_4, indent=2, ensure_ascii=False)[:500]}") # Cleanup print("Workflow complete!") if __name__ == "__main__": asyncio.run(main())

genetic-counseling-report

Installationsoptionen

Quelldateien prüfen

Genetic Counseling Variant Report

Description

Tools Used

Workflow

Test Case

Input

Genetic Counseling Variant Report

Description

Tools Used

Workflow

Test Case

Input

Expected Steps

Usage Example

genetic-counseling-report

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Mehr aus diesem Repository

Mehr aus diesem Repository

Genetic Counseling Variant Report

Description

Tools Used

Workflow

Test Case

Input

Genetic Counseling Variant Report

Description

Tools Used

Workflow

Test Case

Input

Expected Steps

Usage Example