io.github.mims-harvard/tooluniverse
2,700+ scientific tools for AI scientists: life science, research, literature, and more.
MCP server · by mims-harvard
About
io.github.mims-harvard/tooluniverse is an MCP server published by mims-harvard. Marketplaces we read that list it: 1 (Official MCP Registry). The last change we recorded was on 2026-10-12. As of our marketplace pass on 2026-10-13.
What it asks for
- Runs on your machine
- Secrets: 16
- Settings: 17
Requires: ANTHROPIC_API_KEY (secret), AZURE_OPENAI_API_KEY (secret), BIOGRID_API_KEY (secret), BRENDA_PASSWORD (secret), DISGENET_API_KEY (secret), GEMINI_API_KEY (secret), HF_TOKEN (secret), NCBI_API_KEY (secret), NVIDIA_API_KEY (secret), OMIM_API_KEY (secret), ONCOKB_API_TOKEN (secret), OPENAI_API_KEY (secret), OPENROUTER_API_KEY (secret), SEMANTIC_SCHOLAR_API_KEY (secret), UMLS_API_KEY (secret), USPTO_API_KEY (secret)
What it declares, asks for and runs, in full
Only install plugins from developers you trust. We list what marketplaces publish and do not test plugins.
Works with
- Claude Code
- Codex
- Cursor
- VS Code
- Copilot CLI
From the marketplaces that list it and the MCP transport it declares, as each client documents them. We do not test plugins.
Connect
Commands and configs built only from what its marketplaces declare. We do not run them for you and do not test plugins.
As a local MCP server: PyPI package
Built from what Official MCP Registry declares.
claude mcp add --env "ANTHROPIC_API_KEY=<YOUR_ANTHROPIC_API_KEY>" --env "AZURE_OPENAI_API_KEY=<YOUR_AZURE_OPENAI_API_KEY>" --env "BIOGRID_API_KEY=<YOUR_BIOGRID_API_KEY>" --env "BRENDA_PASSWORD=<YOUR_BRENDA_PASSWORD>" --env "DISGENET_API_KEY=<YOUR_DISGENET_API_KEY>" --env "GEMINI_API_KEY=<YOUR_GEMINI_API_KEY>" --env "HF_TOKEN=<YOUR_HF_TOKEN>" --env "NCBI_API_KEY=<YOUR_NCBI_API_KEY>" --env "NVIDIA_API_KEY=<YOUR_NVIDIA_API_KEY>" --env "OMIM_API_KEY=<YOUR_OMIM_API_KEY>" --env "ONCOKB_API_TOKEN=<YOUR_ONCOKB_API_TOKEN>" --env "OPENAI_API_KEY=<YOUR_OPENAI_API_KEY>" --env "OPENROUTER_API_KEY=<YOUR_OPENROUTER_API_KEY>" --env "SEMANTIC_SCHOLAR_API_KEY=<YOUR_SEMANTIC_SCHOLAR_API_KEY>" --env "UMLS_API_KEY=<YOUR_UMLS_API_KEY>" --env "USPTO_API_KEY=<YOUR_USPTO_API_KEY>" --transport stdio tooluniverse -- uvx tooluniverse tooluniverse-smcp-stdio --compact-mode[mcp_servers.tooluniverse]
command = "uvx"
args = ["tooluniverse", "tooluniverse-smcp-stdio", "--compact-mode"]
[mcp_servers.tooluniverse.env]
ANTHROPIC_API_KEY = "<YOUR_ANTHROPIC_API_KEY>"
AZURE_OPENAI_API_KEY = "<YOUR_AZURE_OPENAI_API_KEY>"
BIOGRID_API_KEY = "<YOUR_BIOGRID_API_KEY>"
BRENDA_PASSWORD = "<YOUR_BRENDA_PASSWORD>"
DISGENET_API_KEY = "<YOUR_DISGENET_API_KEY>"
GEMINI_API_KEY = "<YOUR_GEMINI_API_KEY>"
HF_TOKEN = "<YOUR_HF_TOKEN>"
NCBI_API_KEY = "<YOUR_NCBI_API_KEY>"
NVIDIA_API_KEY = "<YOUR_NVIDIA_API_KEY>"
OMIM_API_KEY = "<YOUR_OMIM_API_KEY>"
ONCOKB_API_TOKEN = "<YOUR_ONCOKB_API_TOKEN>"
OPENAI_API_KEY = "<YOUR_OPENAI_API_KEY>"
OPENROUTER_API_KEY = "<YOUR_OPENROUTER_API_KEY>"
SEMANTIC_SCHOLAR_API_KEY = "<YOUR_SEMANTIC_SCHOLAR_API_KEY>"
UMLS_API_KEY = "<YOUR_UMLS_API_KEY>"
USPTO_API_KEY = "<YOUR_USPTO_API_KEY>"{
"mcpServers": {
"tooluniverse": {
"command": "uvx",
"args": [
"tooluniverse",
"tooluniverse-smcp-stdio",
"--compact-mode"
],
"env": {
"ANTHROPIC_API_KEY": "<YOUR_ANTHROPIC_API_KEY>",
"AZURE_OPENAI_API_KEY": "<YOUR_AZURE_OPENAI_API_KEY>",
"BIOGRID_API_KEY": "<YOUR_BIOGRID_API_KEY>",
"BRENDA_PASSWORD": "<YOUR_BRENDA_PASSWORD>",
"DISGENET_API_KEY": "<YOUR_DISGENET_API_KEY>",
"GEMINI_API_KEY": "<YOUR_GEMINI_API_KEY>",
"HF_TOKEN": "<YOUR_HF_TOKEN>",
"NCBI_API_KEY": "<YOUR_NCBI_API_KEY>",
"NVIDIA_API_KEY": "<YOUR_NVIDIA_API_KEY>",
"OMIM_API_KEY": "<YOUR_OMIM_API_KEY>",
"ONCOKB_API_TOKEN": "<YOUR_ONCOKB_API_TOKEN>",
"OPENAI_API_KEY": "<YOUR_OPENAI_API_KEY>",
"OPENROUTER_API_KEY": "<YOUR_OPENROUTER_API_KEY>",
"SEMANTIC_SCHOLAR_API_KEY": "<YOUR_SEMANTIC_SCHOLAR_API_KEY>",
"UMLS_API_KEY": "<YOUR_UMLS_API_KEY>",
"USPTO_API_KEY": "<YOUR_USPTO_API_KEY>"
}
}
}
}Replace the values in angle brackets with your own. We show the names of the settings, never values.
Optional arguments it also declares: --categories.
Optional settings it also lists: BRENDA_EMAIL.
Where it is published
| Marketplace | Status | Version | Figures | Verified | First seen |
|---|---|---|---|---|---|
| Official MCP Registry (Open the registry record) | Listed | 1.5.6 | Forks (GitHub): 261 Stars (GitHub): 1 730 |
Not marked |
Each figure is the marketplace's own and is never added up across marketplaces. A marketplace that publishes no figure shows none: no number is not zero.
What changed
Nothing has moved on this plugin since we started watching it.
Similar plugins
Products whose own names, descriptions, tools and skills are closest in meaning to this one, on every marketplace we read. Closeness is ranked within this list only.
-
mcp io.scispot/mcp
Turn any LLM into your lab assistant: search samples, track experiments, analyze data with AI.
-
AI-powered bioprotocol optimization — generate, search, and manage lab protocols via MCP
-
tomesphere com.tomesphere/tomesphere
Search 8.5M scientific papers with LLM TLDRs, citations, linked entities, figures, and full text.
-
abcommunity org.abcommunity/abcommunity
Find the right MCPs, tools and skills for any AI task - discovery over a 14k+ resource catalog.
-
AI research grounded in 300M scientific works — every citation a verifiable DOI.
-
Deep research assistant that checks its citations against the sources and keeps what it found.
-
clinical-trials-ai-mcp io.github.CSOAI-ORG/clinical-trials-ai-mcp
Clinical Trials Ai MCP Server by MEOK AI Labs
-
Run real bioinformatics from your AI agent. Reliable, reproducible, on your own GPUs.
-
scienceon-mcp io.github.rubatoyd/scienceon-mcp
KISTI ScienceON OpenAPI literature search & metadata collection (MCP server + CLI)
-
arch-tools-mcp io.github.Deesmo/arch-tools-mcp
63 production tools for AI agents — one API key, pay per call in USDC (x402) or Stripe credits.
Similar plugins by marketplace
The same question asked of one marketplace at a time: is there an analog of this plugin there?
Has a listing on Claude Code: claude-plugins-community (5)
-
197 ready-to-use life sciences skills that turn Claude into a domain expert for genomics, proteomics, drug discovery, biostatistics, scientific computing, and scientific writing…
-
nodebench io.github.HomenShum/nodebench
260 MCP tools across 49 domains. AI Flywheel, quality gates, research, web scraping.
-
Arquestra — Scientific Computing Orchestration
AI orchestration for computational chemistry and HPC workflows.
-
agent-discover io.github.keshrath/agent-discover
Find, install and enable MCP servers mid-session on any host, with consent and tool pinning
-
Search, browse, and install MCP servers, agents, skills, prompts, and plugins from the conduitAI catalog — directly from Claude Code.
Has a listing on Claude Code: claude-plugins-official (5)
-
Find the right NVIDIA skill for GPU acceleration, CUDA, AI agents, data loading, training, inference, robotics, Physical AI, Omniverse, simulation, and other NVIDIA-powered…
-
firebase-mcp io.github.firebase/firebase-mcp
Gives AI development tools Firebase-specific capabilities and expertise.
-
Full Domino Data Lab platform support — workspaces, jobs, model deployment, experiment tracking, GenAI tracing, Spark/Ray/Dask, and app deployment for data science teams
-
Build, train, and deploy AI models with deep AWS AI/ML expertise brought directly into your coding assistants, covering the surface area of Amazon SageMaker AI.
-
Agent Skills for Together AI platform — inference, training, embeddings, audio, video, images, function calling, and infrastructure. Covers serverless chat completions…
Has a listing on Claude: knowledge-work-plugins (5)
-
Connect to preclinical research tools and databases (literature search, genomics analysis, target prioritization) to accelerate early-stage life sciences R&D
-
DataRobot skills for AI/ML workflows — model training, deployment, predictions, feature engineering, monitoring, explainability, data preparation, App Framework CI/CD, and…
-
Figma design platform integration. Access design files, extract component information, read design tokens, and translate designs into code. Bridge the gap between design and…
-
Evidence-backed BioPharma research workflows over Maven Bio's drug, trial, company, and deal knowledge graph. Skills for competitive pipelines, indication landscapes, asset…
-
Build multimodal AI applications with Pixeltable -- tables, computed columns, embedding search, UDFs, tool-calling agents, and 25+ AI provider integrations.
Has a listing on Codex: openai-curated (openai/plugins) (5)
-
General life-sciences research workflows with query routing, evidence synthesis, and optional parallel subagent analysis across genetics, omics, biology, chemistry, structure…
-
Skills for NVIDIAs ecosystem spans GPU acceleration, CUDA, AI agents, inference, robotics, Physical AI, Omniverse, and simulation. This plugin helps you understand the pieces…
-
Predict structures, screen molecules and proteins, and design binders.
-
Guided NGS intake, local execution, and public-pipeline routing for BCL, FASTQ, DNA variant, RNA-seq, single-cell, epigenomics, amplicon, and metagenomics analyses, with deeper…
-
Build with OpenAI APIs, Agents SDK, and ChatGPT Apps, and create and save OpenAI API keys from Codex.
Has a listing on Community GitHub marketplaces (5)
-
cybersec-toolkit io.github.26zl/cybersec-toolkit
Authorization-gated MCP server to discover and run 670+ security tools for CTF, pentest, and DFIR.
-
DataRobot skills for AI/ML workflows — model training, deployment, predictions, feature engineering, monitoring, explainability, data preparation, App Framework CI/CD, and…
-
Build, train, and deploy AI models with deep AWS AI/ML expertise brought directly into your coding assistants, covering the surface area of Amazon SageMaker AI.
-
4da-mcp-server io.github.4DA-Systems/4da-mcp-server
Upgrade intelligence for AI agents: what an upgrade changes, where it touches your code, CVE scans.
-
Dynatrace observability skills: DQL query patterns, application and infrastructure monitoring, log analysis, problem investigation, and incident response workflows, with the…
Has a listing on Copilot CLI: github/awesome-copilot (5)
-
Safe BLE diagnostics, evidence workflows, and guarded automation for AI agents.
-
Run a lightweight, role-separated AI development team with flexible tools, developer-selected models, proportionate planning, and optional QA.
-
Figma design platform integration. Access design files, extract component information, read design tokens, and translate designs into code. Bridge the gap between design and…
-
Complete toolkit for building Model Context Protocol (MCP) servers in TypeScript/Node.js using the official SDK. Includes instructions for best practices, a prompt for generating…
-
Complete toolkit for building Model Context Protocol (MCP) servers in Go using the official github.com/modelcontextprotocol/go-sdk. Includes instructions for best practices, a…
Has a listing on Copilot CLI: github/copilot-plugins (5)
-
Toolkit for building Microsoft 365 Copilot declarative agents — scaffolding, JSON manifest development, and capability configuration.
-
mcp-apps
Generate MCP App widgets for MCP tools. Produces self-contained HTML widgets using the MCP Apps protocol.
-
Build Power Apps Canvas Apps using the Canvas Authoring MCP server.
-
model-apps
Build and deploy Power Apps generative pages for model-driven apps with specialist agents for planning, entity creation, and parallel code generation. Requires PAC CLI >= 2.7.0…
-
Bring Azure DevOps work-item, repository, and pull-request workflows into GitHub Copilot.
Has a listing on Cursor: cursor/plugins (5)
-
Fan large tasks out across parallel cloud agents with planners, workers, verifiers, and structured handoffs.
-
Iterative self-referential AI loops using the Ralph Wiggum technique.
-
playwright-mcp io.github.microsoft/playwright-mcp
Playwright Tools for MCP
-
Track AI visibility, sentiment, and citations.
-
Inspect and manage feature gates, experiments, dynamic configs, and metrics.
Has a listing on Docker MCP Catalog (5)
-
Discover and connect to a curated marketplace of MCP servers for extending AI agent capabilities.
-
The Official Model Context Protocol (MCP) server for Kagi Search & other tools.
-
Read and score Opik traces, experiments, datasets and prompts from your AI assistant.
-
A unified MCP proxy that aggregates multiple MCP servers into one interface, enabling seamless tool discovery and management across all your AI interactions. Manage all your MCP…
-
Bridges multiple AI models and CLIs, enabling orchestrated workflows across Claude Code, Gemini CLI, Codex CLI, and other AI development tools.
Has a listing on Official MCP Registry (5)
-
mcp io.scispot/mcp
Turn any LLM into your lab assistant: search samples, track experiments, analyze data with AI.
-
AI-powered bioprotocol optimization — generate, search, and manage lab protocols via MCP
-
tomesphere com.tomesphere/tomesphere
Search 8.5M scientific papers with LLM TLDRs, citations, linked entities, figures, and full text.
-
abcommunity org.abcommunity/abcommunity
Find the right MCPs, tools and skills for any AI task - discovery over a 14k+ resource catalog.
-
AI research grounded in 300M scientific works — every citation a verifiable DOI.
Found by meaning, not by shared code or a shared repository: similar plugins stay separate products, and this is not a review or a recommendation.
Is this your plugin?
Add it to your projects and prove you maintain it with a file in its repository, a file on your domain or a DNS record. You get alerts when a marketplace lists it, drops it, changes its verified mark or what it asks for, and its remote endpoint goes on monitoring as a web service.
Data comes from the Official MCP Registry (registry.modelcontextprotocol.io), CC0 1.0. Figures come from our own regular passes over the marketplaces, last read on . We publish no contact details for plugin publishers.