Zenodo MCP Server for LlamaIndexGive LlamaIndex instant access to 14 tools to Create Deposition, Delete Deposition, Delete Deposition File, and more
GDPR Free for SubscribersLlamaIndex specializes in data-aware AI agents that connect LLMs to structured and unstructured sources. Add Zenodo as an MCP tool provider through Vinkius and your agents can query, analyze, and act on live data alongside your existing indexes.
Ask AI about this MCP Server for LlamaIndex
The Zenodo MCP Server for LlamaIndex is a standout in the Knowledge Management category — giving your AI agent 14 tools to work with, ready to go from day one.
Vinkius delivers Streamable HTTP and SSE to any MCP client
Geminiimport asyncio
from llama_index.tools.mcp import BasicMCPClient, McpToolSpec
from llama_index.core.agent.workflow import FunctionAgent
from llama_index.llms.openai import OpenAI
async def main():
# Your Vinkius token. get it at cloud.vinkius.com
mcp_client = BasicMCPClient("https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp")
mcp_tool_spec = McpToolSpec(client=mcp_client)
tools = await mcp_tool_spec.to_tool_list_async()
agent = FunctionAgent(
tools=tools,
llm=OpenAI(model="gpt-4o"),
system_prompt=(
"You are an assistant with access to Zenodo. "
"You have 14 tools available."
),
)
response = await agent.run(
"What tools are available in Zenodo?"
)
print(response)
asyncio.run(main())
* Every MCP server runs on Vinkius-managed infrastructure inside AWS - a purpose-built runtime with per-request V8 isolates, Ed25519 signed audit chains, and sub-40ms cold starts optimized for native MCP execution. See our infrastructure
About Zenodo MCP Server
Connect your Zenodo account to any AI agent to streamline your scientific research workflows and data management through natural conversation.
LlamaIndex agents combine Zenodo tool responses with indexed documents for comprehensive, grounded answers. Connect 14 tools through Vinkius and query live data alongside vector stores and SQL databases in a single turn. ideal for hybrid search, data enrichment, and analytical workflows.
What you can do
- Deposition Management — Create new unpublished depositions, update metadata, and manage your research drafts directly from the AI.
- Record Discovery — Search and list public records across the entire Zenodo database to find relevant research, software, or datasets.
- File Inspection — List all files attached to specific depositions to understand the contents of a research package.
- Metadata Control — Precisely update titles, creators, descriptions, licenses, and access rights for your unpublished work.
- Version Tracking — Retrieve specific deposition details using unique IDs to monitor the status of your submissions.
The Zenodo MCP Server exposes 14 tools through the Vinkius. Connect it to LlamaIndex in under two minutes — credentials fully managed, no infrastructure to provision, no vendor lock-in. Your configuration, your data, your control.
All 14 Zenodo tools available for LlamaIndex
When LlamaIndex connects to Zenodo through Vinkius, your AI agent gets direct access to every tool listed below — spanning open-access, research-data, metadata-management, and more. Every call runs in a secure, isolated environment with full audit visibility. Beyond a simple connection, you get real-time monitoring of agent activity, enterprise governance, and optimized token usage.
Create deposition on Zenodo
You can optionally provide metadata. Create a new Zenodo deposition
Delete deposition on Zenodo
Note: Only unpublished depositions can be deleted. Delete an unpublished Zenodo deposition
Delete deposition file on Zenodo
Delete a file from a Zenodo deposition
Discard deposition on Zenodo
Discard edits on a Zenodo deposition
Edit deposition on Zenodo
Edit a published Zenodo deposition
Get deposition on Zenodo
Retrieve a Zenodo deposition by ID
Get record on Zenodo
Retrieve a published Zenodo record by ID
List deposition files on Zenodo
List files in a Zenodo deposition
List depositions on Zenodo
List Zenodo depositions
List records on Zenodo
Search published Zenodo records
New version deposition on Zenodo
Create a new version of a Zenodo deposition
Publish deposition on Zenodo
WARNING: Once published, a deposition cannot be deleted. Publish a Zenodo deposition
Update deposition on Zenodo
Update a Zenodo deposition
Upload deposition file on Zenodo
Upload a text file to a Zenodo deposition
Connect Zenodo to LlamaIndex via MCP
Follow these steps to wire Zenodo into LlamaIndex. The entire setup takes under two minutes — your credentials stay safe behind Vinkius.
Install dependencies
pip install llama-index-tools-mcp llama-index-llms-openaiReplace the token
[YOUR_TOKEN_HERE] with your Vinkius tokenRun the agent
agent.py and run: python agent.pyExplore tools
Why Use LlamaIndex with the Zenodo MCP Server
LlamaIndex provides unique advantages when paired with Zenodo through the Model Context Protocol.
Data-first architecture: LlamaIndex agents combine Zenodo tool responses with indexed documents for comprehensive, grounded answers
Query pipeline framework lets you chain Zenodo tool calls with transformations, filters, and re-rankers in a typed pipeline
Multi-source reasoning: agents can query Zenodo, a vector store, and a SQL database in a single turn and synthesize results
Observability integrations show exactly what Zenodo tools were called, what data was returned, and how it influenced the final answer
Zenodo + LlamaIndex Use Cases
Practical scenarios where LlamaIndex combined with the Zenodo MCP Server delivers measurable value.
Hybrid search: combine Zenodo real-time data with embedded document indexes for answers that are both current and comprehensive
Data enrichment: query Zenodo to augment indexed data with live information before generating user-facing responses
Knowledge base agents: build agents that maintain and update knowledge bases by periodically querying Zenodo for fresh data
Analytical workflows: chain Zenodo queries with LlamaIndex's data connectors to build multi-source analytical reports
Example Prompts for Zenodo in LlamaIndex
Ready-to-use prompts you can give your LlamaIndex agent to start working with Zenodo immediately.
"Search for public Zenodo records related to 'machine learning in healthcare'."
"Create a new Zenodo deposition for a dataset titled 'Global Temperature Trends 2023'."
"List all files currently attached to my deposition with ID 987654."
Troubleshooting Zenodo MCP Server with LlamaIndex
Common issues when connecting Zenodo to LlamaIndex through Vinkius, and how to resolve them.
BasicMCPClient not found
pip install llama-index-tools-mcpZenodo + LlamaIndex FAQ
Common questions about integrating Zenodo MCP Server with LlamaIndex.
How does LlamaIndex connect to MCP servers?
Can I combine MCP tools with vector stores?
Does LlamaIndex support async MCP calls?
Explore More MCP Servers
View all →
Deterministic EdTech Quiz Scorer
1 toolsTransform your AI into a ruthless, high-precision EdTech examiner. Automatically cross-reference quiz answers against weighted keys to generate granular performance metrics instantly.
Odoo Purchase
7 toolsCreate purchase orders, manage RFQs, search vendors, and track procurement — Odoo Purchasing through natural conversation.
Testim
10 toolsTrigger automated AI tests, inspect execution logs, and manage branches natively via your AI agent.
GoCardless
12 toolsManage direct debit payments, track mandates, and oversee customers via AI agents with GoCardless.