download-encode 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.
download-encode 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/download-encode@git:20260920.6050003Pins git:20260920.6050003 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- ammawla/encode-toolkit
- Path
plugin/skills/download-encode/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260920.6050003, committed Sep 20, 2026
- First version recorded
- Mar 12, 2026
- Size
- 21,823 bytes
- Repository stars
- 21
- License
- AGPL-3.0
Download ENCODE genomics files (BED, FASTQ, BAM, bigWig, etc.) to the user's machine. Use when the user wants to download data files from ENCODE experiments.
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
# Download ENCODE Files ## When to Use - User wants to download ENCODE data files to their local machine - User asks to "download", "get", or "fetch" ENCODE files - User needs specific file formats (BED, FASTQ, BAM, bigWig) from experiments - User wants to batch download files matching search criteria - User needs to verify file integrity after download (MD5 checksums) - User asks about organizing downloaded files by experiment or format Help the user download ENCODE data files to their local machine. ## Download Strategy 1. **Specific files by accession**: Use `encode_download_files` with file accession IDs (e.g., "ENCFF635JIA"). 2. **Batch download by criteria**: Use `encode_batch_download` to search and download in one step. - Always start with `dry_run=True` (default) to preview what will be downloaded - Show the user the file count, total size, and file list - Only proceed with `dry_run=False` after user confirms 3. **Download organization options**: - `"flat"`: All files in one directory - `"experiment"`: Organized by experiment accession (recommended) - `"format"`: Organized by file format …
Read the whole file at its exact version.
How to install
mdr add ammawla/encode-toolkit/download-encode@sha256:739c6b24d1c151a0The line at the top of this page pins the label git:20260920.6050003, 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_trkwrtrrlifuujrf)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between Mar 12, 2026 and Sep 20, 2026, about one every 96 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260920.6050003 latest | 2026-09-20 | 6050003 | 21,823 B | A | view · diff |
| git:20260321.5cfbcfd | 2026-03-21 | 5cfbcfd | 21,637 B | A | view · diff |
| git:20260312.665e731 | 2026-03-12 | 665e731 | 21,631 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 (21823 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_trkwrtrrlifuujrf GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/download-encode GET https://markdownregistry.com/api/v1/blob/739c6b24d1c151a0024642bbde843805962ddef3d5da01129944a42f9b896736
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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