ncats-arax

ncats-arax is a skill for Claude Code from agentlas-ai/agentlas-desktop. It costs 99 tokens per session (1,818 once invoked), scanned A, a copy of ncats-arax, Apache-2.0.

A service for asking constrained questions of the NCATS Translator biomedical knowledge graph, a database of linked biomedical entities and relationships. It returns typed paths with their source information for further checking.

In plain words
What is it for?
Use it to look up one-step or limited two-step relationships between normalized biomedical entities, inspect source providers, and retain query and provenance details for later verification.
Why use it?
It helps search relationships across biomedical data while preserving the exact query and reported sources. A returned path is only a research lead, not proof of a mechanism, and a missing result does not prove that no relationship exists.

Skill for Claude Code

Written for Claude Code: allowed-tools in frontmatter.

Good fit Use it to look up one-step or limited two-step relationships between normalized biomedical entities, inspect source providers, and retain query and provenance details for later verification.

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Install with agentmods
npx agentmods add skills/agentlas-ai/agentlas-desktop/ncats-arax
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 agentlas-ai/agentlas-desktop --skill ncats-arax
Clone the repo
git clone --depth 1 https://github.com/agentlas-ai/agentlas-desktop

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 ncats-arax

README.md
[![agentmods](https://agentmods.dev/badge/skills/agentlas-ai/agentlas-desktop/ncats-arax/github.svg)](https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/ncats-arax)
Your own site
<a href="https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/ncats-arax"><img src="https://agentmods.dev/badge/skills/agentlas-ai/agentlas-desktop/ncats-arax/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 ncats-arax

Your own site · 80×15
<a href="https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/ncats-arax"><img src="https://agentmods.dev/badge/skills/agentlas-ai/agentlas-desktop/ncats-arax.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 99 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,818 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 100% copy Near-identical to another mod 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 $0.00099 $0.01818
Opus 5.5 $0.00040 $0.00727
Sonnet 5.5 $0.00020 $0.00364
Haiku 4.5 $0.00010 $0.00182

Measured 1mo ago against content hash 87921ff0abe0, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

ncats-arax 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 1mo ago.

The scan reads SKILL.md. This mod also ships 1 executable file (scripts/arax_client.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

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.

Origin

This is a copy

100% identical to ncats-arax — 30 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.

plugins/agentlas-science-skills/skills/ncats-arax/SKILL.md · 179 lines

How it starts

The opening of the file, as written. The whole thing — 179 lines — stays where its author put it; the contents beside it link to each section on GitHub.

NCATS ARAX

Use ARAX as a constrained knowledge-graph lookup service. Submit reviewed CURIEs and explicit Biolink types, preserve the exact TRAPI exchange, inspect query-edge bindings and provenance, and treat every returned path as a candidate for subsequent verification.

Read query-contract.md before constructing a query. Read output-schema.md when interpreting saved artifacts, warnings, provenance, or partial results.

Safety boundary

  • Use only public, nonsensitive research questions. ARAX status facilities may expose query and caller metadata even when store=false is requested.
  • Do not submit patient information, confidential research questions, unpublished compound programs, or proprietary target hypotheses.
  • Do not present a returned path as a validated mechanism or clinical recommendation.
  • Report a zero as "not returned under these constraints," never as evidence that no relationship exists.
  • Describe position as unscored response order, never rank.
  • Verify important candidates with literature and authoritative databases separately.

Workflow

  1. Normalize free text separately, then review and report the proposed CURIE and category.
  2. Choose a typed one-hop query or an exactly two-hop query with both endpoints pinned.
  3. Use default RTX-KG2 lookup unless the user explicitly names two to five providers.
  4. Acknowledge that the biomedical query is public and choose a new or empty output directory.
  5. Run the client once. Do not silently change provider selection or expansion order after a failure or empty result.
  6. Inspect summary.json for bounded bindings and provenance and response.json for the exact TRAPI payload.
  7. Verify scientifically important paths outside ARAX.

Preflight

Check the production OpenAPI without making a biomedical query:

python skills/ncats-arax/scripts/arax_client.py preflight

The client verifies that the service identifies itself as ARAX, exposes /query, and reports a supported TRAPI version. A nonproduction endpoint or untested TRAPI series requires an explicit override; neither override changes the fixed query shapes or operations.

Read the full file on GitHub · 179 lines

Files

What ships with it

3 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

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. 1mo ago First seen · 179 lines · 99 tokens per session scan A 87921ff0abe0

Subscribe to this mod's changes

ncats-arax is a skill published in the GitHub repository agentlas-ai/agentlas-desktop (6 stars, last pushed yesterday), licensed Apache-2.0. It adds 99 tokens to every session and 1,818 once invoked, about $0.0004 per session on Opus 5.5. A static security scan graded it A with 0 findings. It is 100% identical to ncats-arax, differing in 30 lines, and is treated as a copy.

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