epigenome-profiling SKILL.md skillA
This file is byte-identical to the first copy the registry indexed. Same content hash, so the same checks give both the same grade.
epigenome-profiling 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/epigenome-profiling@git:20260921.4ba10c6Pins git:20260921.4ba10c6 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/epigenome-profiling/SKILL.md- Versions recorded
- 5
- Latest version
- git:20260921.4ba10c6, committed Sep 21, 2026
- First version recorded
- Mar 8, 2026
- Size
- 34,247 bytes
- Repository stars
- 21
- License
- AGPL-3.0
Build comprehensive epigenomic profiles for tissues or cell types using ENCODE data. Use when the user wants to characterize chromatin states, assemble histone modification panels, create epigenomic landscapes, run ChromHMM segmentation, identify super-enhancers or bivalent domains, profile regulatory elements across a biosample, or understand epigenetic regulation in a specific biological context. Covers histone marks, chromatin accessibility, TF binding, transcription, DNA methylation, and…
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
# Build Comprehensive Epigenomic Profiles with ENCODE ## When to Use - User wants to build a comprehensive epigenomic profile for a tissue or cell type - User asks about "chromatin states", "epigenome", or "histone landscape" for a biosample - User wants to identify super-enhancers, bivalent domains, or regulatory elements - User needs to assemble a panel of histone marks, accessibility, and TF binding data - User wants to run ChromHMM segmentation on ENCODE data - User asks "what epigenomic data does ENCODE have for [tissue]?" Assemble a complete epigenomic profile for a tissue or cell type by systematically gathering histone modifications, chromatin accessibility, transcription factor binding, transcription, DNA methylation, and 3D chromatin structure data from ENCODE. Interpret the resulting profile using ChromHMM chromatin state segmentation. ## Literature Foundation | Reference | Year | Journal | DOI | Citations | Contribution | |-----------|------|---------|-----|-----------|-------------| …
Read the whole file at its exact version.
How to install
mdr add ammawla/encode-toolkit/epigenome-profiling@sha256:56a9bdf5f08adfffThe line at the top of this page pins the label git:20260921.4ba10c6, 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_jsl46bdim6aq4gwt)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 5 versions of this file, between Mar 8, 2026 and Sep 21, 2026, about one every 49 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260921.4ba10c6 latest | 2026-09-21 | 4ba10c6 | 34,247 B | A | view · diff |
| git:20260920.6050003 | 2026-09-20 | 6050003 | 34,241 B | A | view · diff |
| git:20260920.992a807 | 2026-09-20 | 992a807 | 33,021 B | A | view · diff |
| git:20260321.d9029d0 | 2026-03-21 | d9029d0 | 32,858 B | A | view · diff |
| git:20260308.ca46af5 | 2026-03-08 | ca46af5 | 32,851 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 (34247 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_jsl46bdim6aq4gwt GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/epigenome-profiling GET https://markdownregistry.com/api/v1/blob/56a9bdf5f08adfff0f2543ccf1f2b3e2334bf7d571551905badaf79621e1c1d8
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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