histone-aggregation SKILL.md skillA
histone-aggregation from ammawla/encode-toolkit is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add ammawla/encode-toolkit/histone-aggregation@git:20260921.7231da8Pins git:20260921.7231da8 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- ammawla/encode-toolkit
- Path
skills/histone-aggregation/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260921.7231da8, committed Sep 21, 2026
- First version recorded
- Mar 8, 2026
- Size
- 17,506 bytes
- Repository stars
- 21
- License
- AGPL-3.0
Build comprehensive histone mark maps by aggregating narrowPeak data across multiple ENCODE experiments, donors, and labs. Use when the user wants to answer "where is this histone mark present in my tissue?" by combining peak calls from multiple studies into a union peak set with confidence annotations. Handles cross-lab batch effects, broad vs narrow marks, and ENCODE blocklist filtering.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# Aggregate Histone ChIP-seq Peaks Across Studies ## When to Use - User wants to combine histone ChIP-seq peaks across multiple ENCODE experiments for a tissue or cell type - User asks "where is H3K27ac in pancreas?" or "build a histone mark map for liver" - User needs a union peak set from multiple donors, labs, or replicates - User wants to create a consensus binding map from multiple ChIP-seq datasets - Example queries: "aggregate all H3K4me3 peaks in brain", "combine histone marks across donors", "build enhancer map from H3K27ac data" Build a comprehensive map of histone mark binding for a tissue/cell type by merging narrowPeak files from multiple ENCODE experiments into a union peak set. ## Scientific Rationale **The question**: "Does my tissue have this histone mark, and at what genomic locations?" …
Read the whole file at its exact version.
How to install
mdr add ammawla/encode-toolkit/histone-aggregation@sha256:0c5e4defe0b96e02The line at the top of this page pins the label git:20260921.7231da8, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_7q35cgntd6p6oibk)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between Mar 8, 2026 and Sep 21, 2026, about one every 98 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260921.7231da8 latest | 2026-09-21 | 7231da8 | 17,506 B | A | view · diff |
| git:20260920.6050003 | 2026-09-20 | 6050003 | 17,190 B | A | view · diff |
| git:20260308.ca46af5 | 2026-03-08 | ca46af5 | 16,952 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (17506 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
ammawla/encode-toolkit · 21 stars · license AGPL-3.0 · pushed 2026-09-27 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_7q35cgntd6p6oibk GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/histone-aggregation GET https://markdownregistry.com/api/v1/blob/0c5e4defe0b96e0290529f516cd726871cb0a2297f9df6dffa9418067833914f
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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