Bioresearch Introduction
Describe the BioResearch Agent Framework and its capabilities to a user or agent. Use when the user asks "what can BioResearch Agent do", wants an overview of available workflows, or is deciding which skill to invoke for a biomedical research task.
Install
$ agentstack add skill-alim430-bioresearch-agent-project-introduction ✓ scanned · ✓ verified — works with Claude Code, Cursor, and more.
Security review
✓ PassedNo issues found. Passed automated security review. · v0.1.0 How review works →
- ✓ Prompt-injection patterns
- ✓ Secret / credential exfiltration
- ✓ Dangerous shell & filesystem operations
- ✓ Untrusted network calls
- ✓ Known-malicious package signatures
What it can access
- ✓ Network access No
- ✓ Filesystem access No
- ✓ Shell / process execution No
- ✓ Environment & secrets No
- ✓ Dynamic code execution No
From automated source analysis of v0.1.0. “Used” means the capability is present in the source — more access means more to trust, not that it’s unsafe.
About
BioResearch Agent — Framework Introduction
What this skill is
A reference skill that explains the BioResearch Agent Framework's capabilities. It adds no analysis of its own — it only describes what the framework can do and points to the right workflow skill.
Capabilities at a glance
| Capability | Workflow | Entry point | |:---|:---|:---| | Literature review + knowledge graph | literature | bioresearch run literature --query "..." | | Biomarker discovery (DEG + enrichment) | biomarker | bioresearch run biomarker --disease "..." | | Differential expression (DEG) | biomarker | bioresearch run biomarker --disease "..." | | Pathway / GO / KEGG enrichment | biomarker | bioresearch run biomarker --disease "..." | | Mendelian randomization (MR) | causal | bioresearch run causal --exposure X --outcome Y | | Environment / reproducibility check | doctor | bioresearch doctor |
Run
No computation. This skill informs; the actual work is done by the workflow skills (bioresearch-literature-analysis, bioresearch-biomarker-discovery, bioresearch-differential-expression, bioresearch-pathway-enrichment, bioresearch-causal-inference, bioresearch-environment-check).
Honesty note
BioResearch Agent executes reproducible workflows (t-test + Bonferroni, hypergeometric enrichment, IVW-MR) by dispatching to existing domain libraries. It does not reason about biology and does not discover novel science on its own.
Source & license
This open-source skill is cataloged on AgentStack and links to its original source — we do not rehost the code.
- Author: Alim430
- Source: Alim430/bioresearch-agent
- License: MIT
Install and usage instructions live in the source repository linked above.
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Versions
- v0.1.0 Imported from the upstream source.