functional-screen-analysis

functional-screen-analysis is a skill for Claude Code from ammawla/encode-toolkit. It costs 55 tokens per session (8,565 once invoked), scanned A, original, AGPL-3.0.

A tool for studying functional genomics experiments, which test how DNA regions affect gene activity. It covers CRISPR screens, MPRA, and STARR-seq.

In plain words
What is it for?
It helps find relevant ENCODE screen data, process results, identify active regulatory elements, and combine screen findings with epigenomic information.
Why use it?
It helps turn large screening results into identified functional DNA elements and connect them with other genome annotations.

Skill for Claude Code

Written for Claude Code: shipped in a Claude Code plugin.

Part of the encode-toolkit plugin — 47 skills, 1 MCP server shipped together

Good fit It helps find relevant ENCODE screen data, process results, identify active regulatory elements, and combine screen findings with epigenomic information.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/ammawla/encode-toolkit/functional-screen-analysis
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 ammawla/encode-toolkit --skill functional-screen-analysis
Clone the repo
git clone --depth 1 https://github.com/ammawla/encode-toolkit

Made for: Claude Code.

Or install encode-toolkit, the plugin that ships this one along with the rest of its 47 skills, 1 MCP server.

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 functional-screen-analysis

README.md
[![agentmods](https://agentmods.dev/badge/skills/ammawla/encode-toolkit/functional-screen-analysis/github.svg)](https://agentmods.dev/skills/ammawla/encode-toolkit/functional-screen-analysis)
Your own site
<a href="https://agentmods.dev/skills/ammawla/encode-toolkit/functional-screen-analysis"><img src="https://agentmods.dev/badge/skills/ammawla/encode-toolkit/functional-screen-analysis/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 functional-screen-analysis

Your own site · 80×15
<a href="https://agentmods.dev/skills/ammawla/encode-toolkit/functional-screen-analysis"><img src="https://agentmods.dev/badge/skills/ammawla/encode-toolkit/functional-screen-analysis.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 55 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 8,565 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 $0.00055 $0.08565
Opus 5.5 $0.00022 $0.03426
Sonnet 5.5 $0.00011 $0.01713
Haiku 4.5 $0.00006 $0.00856

Measured 1mo ago against content hash c119c081a59b, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

functional-screen-analysis 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.

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.

plugin/skills/functional-screen-analysis/SKILL.md · 728 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

Files

What ships with it

1 file 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 Changed · +24 lines c119c081a59b
  2. 1mo ago First seen · 704 lines · 55 tokens per session scan A 04ce0530f1bc

Subscribe to this mod's changes

functional-screen-analysis is a skill published in the GitHub repository ammawla/encode-toolkit (21 stars, last pushed 26d ago), licensed AGPL-3.0. It adds 55 tokens to every session and 8,565 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.

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