encode-api-patterns

encode-api-patterns is a cursor rule for Cursor from ammawla/encode-toolkit. It costs 0 tokens per session (405 once invoked), scanned A, original, AGPL-3.0.

A set of usage rules for connecting to the ENCODE Toolkit, a service that provides public genomics data and related tools.

In plain words
What is it for?
It is for working with ENCODE API requests and MCP tool calls.
Why use it?
It helps an agent use the ENCODE tools consistently and avoid common mistakes when requesting or interpreting data.

Cursor rule for Cursor

Written for Cursor: a Cursor rule (.mdc).

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.

agentmods
npx agentmods add rules/ammawla/encode-toolkit/encode-api-patterns
Clone the repo
git clone --depth 1 https://github.com/ammawla/encode-toolkit

Made for: Cursor.

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 encode-api-patterns

README.md
[![agentmods](https://agentmods.dev/badge/rules/ammawla/encode-toolkit/encode-api-patterns.svg)](https://agentmods.dev/rules/ammawla/encode-toolkit/encode-api-patterns)
Your own site
<a href="https://agentmods.dev/rules/ammawla/encode-toolkit/encode-api-patterns"><img src="https://agentmods.dev/badge/rules/ammawla/encode-toolkit/encode-api-patterns.svg" alt="Measured on agentmods" height="20"></a>
Per session 0 Nothing until a file matches its globs; then the whole rule loads.
When invoked 405 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. Scan, not verified.
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 $0.00000 $0.00405
Opus 5 $0.00000 $0.00202
Sonnet 5 $0.00000 $0.00081
Haiku 4.5 $0.00000 $0.00040

Measured 2d ago against content hash 62856a6adc56, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-06, from the pricing page.

Security

Grade A, and why

encode-api-patterns 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 2d 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.

rules/encode-api-patterns.mdc · 50 lines

The source is not reproduced here

Licensed AGPL-3.0

The repository is licensed AGPL-3.0, which this catalogue does not treat as permission to reproduce the file. Read it at the source.

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. 2d ago First seen · 50 lines · 0 tokens per session scan A 62856a6adc56

Subscribe to this mod's changes

encode-api-patterns is a cursor rule published in the GitHub repository ammawla/encode-toolkit (24 stars, last pushed 1mo ago), licensed AGPL-3.0. It costs nothing until one of its globs matches a file; then it loads 405 tokens. 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 2026-09-03.