bioconductor-keggrest

bioconductor-keggrest is a skill for Claude Code from bioMate-AI/biomate-bioconductor-kb. It costs 60 tokens per session (1,270 once invoked), scanned A, original, no licence file.

An R package that connects to the REST API of KEGG, a database of genes, proteins, chemical compounds, and biological pathways. It is intended for academic users at academic institutions.

In plain words
What is it for?
Use it to access KEGG records and pathway-related data through its web API during academic bioinformatics analyses.
Why use it?
It provides a way to request KEGG data from R instead of manually retrieving and processing web responses.

Skill for Claude Code

Written for Claude Code: user-invocable in frontmatter.

Good fit Use it to access KEGG records and pathway-related data through its web API during academic bioinformatics analyses.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/biomate-ai/biomate-bioconductor-kb/keggrest
Install

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.

Any agent
npx skills add bioMate-AI/biomate-bioconductor-kb --skill keggrest
Clone the repo
git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb

Made for: Claude Code.

Wrote 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.

agentmods badge for bioconductor-keggrest

README.md
[![agentmods](https://agentmods.dev/badge/skills/biomate-ai/biomate-bioconductor-kb/keggrest/github.svg)](https://agentmods.dev/skills/biomate-ai/biomate-bioconductor-kb/keggrest)
Your own site
<a href="https://agentmods.dev/skills/biomate-ai/biomate-bioconductor-kb/keggrest"><img src="https://agentmods.dev/badge/skills/biomate-ai/biomate-bioconductor-kb/keggrest/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.

agentmods 80×15 button for bioconductor-keggrest

Your own site · 80×15
<a href="https://agentmods.dev/skills/biomate-ai/biomate-bioconductor-kb/keggrest"><img src="https://agentmods.dev/badge/skills/biomate-ai/biomate-bioconductor-kb/keggrest.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 60 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,270 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin unknown No closer match found in the catalogue.
Token cost

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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00060 $0.01270
Opus 5.5 $0.00024 $0.00508
Sonnet 5.5 $0.00012 $0.00254
Haiku 4.5 $0.00006 $0.00127

Measured 2mo ago against content hash 4429d7967432, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

bioconductor-keggrest 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 2mo 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.

skills/genomics/keggrest/SKILL.md · 70 lines

The source is not reproduced here

A licence we could not identify

The repository carries a LICENSE file, but it is custom or dual enough that GitHub cannot name it and neither can this catalogue. Unknown terms are not permission, so the body is not copied here. Read the licence at the source and decide for yourself.

Read it on GitHub

Changes

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.

  1. 2mo ago First seen · 70 lines · 60 tokens per session scan A 4429d7967432

Subscribe to this mod's changes

bioconductor-keggrest is a skill published in the GitHub repository bioMate-AI/biomate-bioconductor-kb (792 stars, last pushed 4mo ago), with no licence file. It adds 60 tokens to every session and 1,270 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.

Related

bioconductor-keggrest compared with skills from other repositories

bioconductor-keggrest next to 6 skills from other repositories
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