ToolUniverse is a collection of tools, interfaces, and supporting components for building AI systems that perform scientific work. It is for developers creating AI scientist agents that use APIs, databases, machine-learning tools, and domain-specific utilities. The catalogue includes skills, commands, an MCP server, an agent, and a hook for working with the ecosystem.
Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add mims-harvard/ToolUniverse --skill tooluniverse-data-integration-analysisgit clone --depth 1 https://github.com/mims-harvard/ToolUniverseWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/mims-harvard/tooluniverse/tooluniverse-data-integration-analysis)<a href="https://agentmods.dev/skills/mims-harvard/tooluniverse/tooluniverse-data-integration-analysis"><img src="https://agentmods.dev/badge/skills/mims-harvard/tooluniverse/tooluniverse-data-integration-analysis/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/mims-harvard/tooluniverse/tooluniverse-data-integration-analysis"><img src="https://agentmods.dev/badge/skills/mims-harvard/tooluniverse/tooluniverse-data-integration-analysis.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00075 | $0.01809 |
| Opus 5 | $0.00037 | $0.00905 |
| Sonnet 5 | $0.00015 | $0.00362 |
| Haiku 4.5 | $0.00007 | $0.00181 |
Grade A, and why
tooluniverse-data-integration-analysis scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 10d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 131 lines — stays where its author put it; the contents beside it link to each section on GitHub.
COMPUTE, DON'T DESCRIBE
When analysis requires computation (statistics, data processing, scoring, enrichment), write and run Python code via Bash. Don't describe what you would do -- execute it and report actual results. Use ToolUniverse tools to retrieve data, then Python (pandas, scipy, statsmodels, matplotlib) to analyze it.
Data Integration Analysis
Bridge the gap between statistical results and biological understanding. After any computational analysis produces significant findings, this skill teaches how to interpret them using ToolUniverse's biological knowledge tools -- the key advantage over platforms that only do data analysis.
IMPORTANT: Always use English terms in tool calls (gene names, pathway names, organism names), even if the user writes in another language. Respond in the user's language.
When to Use This Skill
Apply when:
- Statistical analysis produced a list of significant genes, variants, metabolites, or exposures
- Users want to go beyond p-values to understand WHY something is significant
- Combining computational results with published evidence
- Interpreting differential expression, GWAS hits, or association study results biologically
- Users ask "what does this result mean?" after running an analysis
NOT for (use other skills instead):
- Running the statistical analysis itself --> Use
tooluniverse-statistical-modelingortooluniverse-rnaseq-deseq2 - Pure gene enrichment without prior analysis --> Use
tooluniverse-gene-enrichment - Pure literature review --> Use
tooluniverse-literature-deep-research - Single variant interpretation --> Use
tooluniverse-variant-interpretation
Step 1: Statistical Results to Biological Questions
Map each type of significant finding to the right biological question:
| Finding Type | Biological Question | Tool Discovery Query |
|---|---|---|
| Significant gene list | What pathways are enriched? What functions converge? | find_tools("gene enrichment pathway analysis") |
| Significant variant (rsID) | What is the functional impact? Which gene is affected? | find_tools("variant annotation functional impact") |
| Significant exposure/chemical | What is the biological mechanism? Which pathways? | find_tools("chemical gene pathway toxicology") |
| Significant drug association | What is the molecular target? What is the MOA? | find_tools("drug target mechanism action") |
| Significant metabolite | Which metabolic pathway is perturbed? | find_tools("metabolite pathway identification") |
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 10d ago First seen · 131 lines · 75 tokens per session scan A e266056bbe28
tooluniverse-data-integration-analysis is a skill published in the GitHub repository mims-harvard/ToolUniverse (1,678 stars, last pushed today), licensed Apache-2.0. It adds 75 tokens to every session and 1,809 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
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