Scientific Agent Skills is a collection of reusable procedures that give AI agents capabilities for scientific research across areas such as biology, chemistry, medicine, and drug discovery. It is used by researchers and by people building AI scientist workflows with compatible coding agents. The catalogue contains many of the project's skills and supporting instructions.
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 K-Dense-AI/scientific-agent-skills --skill bgpt-paper-searchgit clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skillsWrote 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/k-dense-ai/scientific-agent-skills/bgpt-paper-search)<a href="https://agentmods.dev/skills/k-dense-ai/scientific-agent-skills/bgpt-paper-search"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/bgpt-paper-search/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/k-dense-ai/scientific-agent-skills/bgpt-paper-search"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/bgpt-paper-search.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- Socket pass
- Snyk warn
- NVIDIA SkillSpector warn
SkillSpector: 3 findings, up to medium
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- medium MCP Rug Pull · line 5 npx commands without a version suffix (e.g. @1.0.0) create a rug-pull risk if the upstream server is compromised and publishes a malicious update.Fix: Pin the version: npx @scope/[email protected]
- medium MCP Rug Pull · line 5 npx commands without a version suffix (e.g. @1.0.0) create a rug-pull risk if the upstream server is compromised and publishes a malicious update.Fix: Pin the version: npx @scope/[email protected]
- medium MCP Rug Pull · line 52 npx commands without a version suffix (e.g. @1.0.0) create a rug-pull risk if the upstream server is compromised and publishes a malicious update.Fix: Pin the version: npx @scope/[email protected]
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 | $0.00053 | $0.01793 |
| Opus 5.5 | $0.00021 | $0.00717 |
| Sonnet 5.5 | $0.00011 | $0.00359 |
| Haiku 4.5 | $0.00005 | $0.00179 |
Grade A, and why
bgpt-paper-search 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 14d 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.
Copies of this mod
5 near-identical copies found in the catalogue:
- bgpt-paper-search — 100% identical, 163 lines differ
- bgpt-paper-search — 100% identical, 163 lines differ
- bgpt-paper-search — 100% identical, 163 lines differ
- bgpt-paper-search — 100% identical, 163 lines differ
- bgpt-paper-search — 100% identical, 163 lines differ
How it starts
The opening of the file, as written. The whole thing — 159 lines — stays where its author put it; the contents beside it link to each section on GitHub.
BGPT Paper Search
When to use
Use BGPT to find full-text-derived evidence for a research question or a known DOI. It returns extracted claims and their supporting experiments, rather than only bibliographic metadata. Use these records to build a traceable evidence table; they are not a complete systematic-review search or a validated risk-of-bias assessment.
Connect
Configure BGPT in the host before use; installing this skill does not register an MCP server. The provider supports both transports:
| Transport | Endpoint |
|---|---|
| Streamable HTTP | https://bgpt.pro/mcp/stream |
| SSE | https://bgpt.pro/mcp/sse |
Use the host's native remote-MCP configuration when supported. For a host that
uses mcpServers JSON and requires a local stdio bridge, this configuration uses
mcp-remote (adapt it to the host's actual settings format):
{
"mcpServers": {
"bgpt": {
"command": "npx",
"args": ["-y", "mcp-remote", "https://bgpt.pro/mcp/stream", "--transport", "http-only"]
}
}
}
The published bgpt-mcp 1.1.0 npm package is a thin SSE wrapper around
mcp-remote, not a local paper database. Its bundled README predates the current
tool contract and pricing. Prefer the native connection or configurable bridge
above. The linked BGPT GitHub repository was unavailable at review time; use
the current provider documentation and live tool schema.
Free access needs no key. For paid usage, configure Authorization: Bearer <key>
in the host's remote-server headers, using its credential storage. For the bridge,
mcp-remote supports --header-file
with a local credential file. Do not put api_key in an MCP tool call: neither
current tool declares that argument. Authenticate through the connection.
Search and DOI lookup
Discover the connected server's tools before calling them. The live BGPT 2.14.7 schema reviewed on 2026-09-30 exposes:
| Tool / argument | Contract |
|---|---|
search_papers.query |
Required string. Use short English search terms. |
num_results |
Integer, 1–100; default 16. Set it explicitly to control result use. |
days_back |
Optional integer; papers published within the last N days. Omit for all dates. |
min_citations |
Optional integer; minimum number of references cited by the paper, not citations received. |
study_type |
Optional string: primary study, systematic review, meta-analysis, narrative review, protocol, dataset, commentary, or other. |
output_format |
evidence (default), full, or legacy. |
lookup_paper.doi |
Required DOI string; also accepts output_format. A found paper counts as one result. |
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.
- 14d ago Changed · +74 lines · -11 tokens per session 3b7db6956c13
- 15d ago Changed · +9 lines 6964a6ffaf4c
- 1mo ago First seen · 76 lines · 64 tokens per session scan A 6013089aadc2
bgpt-paper-search is a skill published in the GitHub repository K-Dense-AI/scientific-agent-skills (50,453 stars, last pushed today), licensed MIT. It adds 53 tokens to every session and 1,793 once invoked, about $0.0002 per session on Opus 5.5. 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.
Other skills, from other repositories
discovery-toolbox
A routed repertoire of 90 scientific thinking operators for biological research agents - visual reasoning, detectability and information budgets, search reframing, causal identification, competing explanations, observation and selection processes, pipeline artifact diagnosis, effort allocation, and confirmation…
discovery-director
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bio-interdomain-hgt
Detect and polarize interdomain horizontal gene transfer with reciprocal hits, genomic context, and gene trees. Use for virus-host gene exchange, endogenous viral elements, or donor direction.
csag-extraction
Extract a Conditional Scientific Argumentation Graph and grounded Q&A from a manuscript. Use when representing assertions, contexts, evidence links, and inference steps in machine-readable form.
notebooks
Author, run and convert marimo or Jupyter notebooks. Use when delivering an analysis notebook executed end to end with figures embedded.
bio-annotation
Annotate proteins with functions, domains, and homology-based taxonomy. Use when assigning functional or taxonomic labels to proteins from genomes, contigs, or MAGs.