Zenodo MCP Server for Claude CodeGive Claude Code instant access to 14 tools to Create Deposition, Delete Deposition, Delete Deposition File, and more
Claude Code is Anthropic's agentic CLI for terminal-first development. Add Zenodo as an MCP server in one command and Claude Code will discover every tool at runtime. ideal for automation pipelines, CI/CD integration, and headless workflows via Vinkius.
Ask AI about this MCP Server for Claude Code
The Zenodo MCP Server for Claude Code 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
# Your Vinkius token. get it at cloud.vinkius.com
claude mcp add zenodo --transport http "https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp"Vinkius Desktop App
The modern way to manage MCP Servers — no config files, no terminal commands. Install Zenodo and 4,000+ MCP Servers from a single visual interface.





* 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.
Claude Code registers Zenodo as an MCP server in a single terminal command. Once connected, Claude Code discovers all 14 tools at runtime and can call them headlessly. ideal for CI/CD pipelines, cron jobs, and automated workflows where Zenodo data drives decisions without human intervention.
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- Deposition Management — Create new unpublished depositions, update metadata, and manage your research drafts directly from the AI.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- Metadata Control — Precisely update titles, creators, descriptions, licenses, and access rights for your unpublished work.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 Claude Code 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 Claude Code
When Claude Code 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 Claude Code via MCP
Follow these steps to wire Zenodo into Claude Code. The entire setup takes under two minutes — your credentials stay safe behind Vinkius.
Install Claude Code
npm install -g @anthropic-ai/claude-code if not already installedAdd the MCP Server
Verify the connection
claude mcp to list connected servers, or type /mcp inside a sessionStart using Zenodo
Why Use Claude Code with the Zenodo MCP Server
Claude Code provides unique advantages when paired with Zenodo through the Model Context Protocol.
Single-command setup: `claude mcp add` registers the server instantly. no config files to edit or applications to restart
Terminal-native workflow means MCP tools integrate seamlessly into shell scripts, CI/CD pipelines, and automated DevOps tasks
Claude Code runs headlessly, enabling unattended batch processing using Zenodo tools in cron jobs or deployment scripts
Built by the same team that created the MCP protocol, ensuring first-class compatibility and the fastest adoption of new protocol features
Zenodo + Claude Code Use Cases
Practical scenarios where Claude Code combined with the Zenodo MCP Server delivers measurable value.
CI/CD integration: embed Zenodo tool calls in your deployment pipeline to validate configurations or fetch secrets before shipping
Headless batch processing: schedule Claude Code to query Zenodo nightly and generate reports without human intervention
Shell scripting: pipe Zenodo outputs into other CLI tools for data transformation, filtering, and aggregation
Infrastructure monitoring: run Claude Code in a cron job to query Zenodo status endpoints and alert on anomalies
Example Prompts for Zenodo in Claude Code
Ready-to-use prompts you can give your Claude Code 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 Claude Code
Common issues when connecting Zenodo to Claude Code through Vinkius, and how to resolve them.
Command not found: claude
npm install -g @anthropic-ai/claude-codeConnection timeout
Zenodo + Claude Code FAQ
Common questions about integrating Zenodo MCP Server with Claude Code.
How do I add an MCP server to Claude Code?
claude mcp add --transport http "" in your terminal. Claude Code registers the server and discovers all tools immediately.Can Claude Code run MCP tools in headless mode?
How do I list all connected MCP servers?
claude mcp in your terminal to see all registered servers and their status, or type /mcp inside an active Claude Code session.Explore More MCP Servers
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