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track-experiments SKILL.md skillA

track-experiments from ammawla/encode-toolkit is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.

Install it, pinned

mdr add ammawla/encode-toolkit/track-experiments@git:20260921.7231da8

Pins 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: plugin/skills/track-experiments/SKILL.md
Versions recorded: 5
Latest version: git:20260921.7231da8, committed Sep 21, 2026
First version recorded: Mar 12, 2026
Size: 41,363 bytes
Repository stars: 21
License: AGPL-3.0

Track ENCODE experiments locally with publications, citations, and provenance. Use when the user wants to build a collection of experiments, manage citations, compare experiments, or track data provenance.

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

# Track ENCODE Experiments

## When to Use

- User wants to save/bookmark ENCODE experiments for later reference
- User needs to build a collection of experiments for a project
- User asks to "track", "save", or "bookmark" an experiment
- User wants to manage citations and publications for ENCODE data
- User needs to compare experiments for compatibility
- User wants to export their experiment collection as CSV/TSV/JSON
- User asks about data provenance (linking derived files to ENCODE sources)

Help the user manage their local collection of ENCODE experiments. This skill covers the full lifecycle of experiment management: discovery, tracking, annotation, citation, comparison, provenance, and export.

## Tracking Capabilities

1. **Track an experiment**: Use `encode_track_experiment` to save experiment metadata, publications, and pipeline info locally.
   - Automatically extracts GEO accessions and PMIDs from experiment metadata
   - Fetches associated publications with authors, journal, DOI
   - Stores 18 metadata fields per experiment (see schema below)
   - Idempotent: re-tracking the same accession updates metadata without creating duplicates
…

Read the whole file at its exact version.

How to install

The exact contents, by fingerprint

mdr add ammawla/encode-toolkit/track-experiments@sha256:0809a4d26f8955a9

The 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.

Badge

[![mdr](https://markdownregistry.com/badge/art_57dzlgf3fetqumls.svg)](https://markdownregistry.com/a/art_57dzlgf3fetqumls)

3 badge image fetches in 30 days. What the badge shows.

Versions

The registry has recorded 5 versions of this file, between Mar 12, 2026 and Sep 21, 2026, about one every 48 days.

version	committed	commit	size	audit
git:20260921.7231da8 latest	2026-09-21	7231da8	41,363 B	A	view · diff
git:20260920.6050003	2026-09-20	6050003	41,357 B	A	view · diff
git:20260920.ce7840d	2026-09-20	ce7840d	38,809 B	A	view · diff
git:20260321.d9029d0	2026-03-21	d9029d0	38,825 B	A	view · diff
git:20260312.be32706	2026-03-12	be32706	38,819 B	A	view

Audit of the latest version

A 17 of 17 checks passed. Fixed automatic checks with no AI involved, so the same checks give the same answer every run.

pass: Frontmatter block present
pass: Frontmatter declares a name
pass: Frontmatter declares a description
pass: Size between 200 bytes and 200 KB (41363 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

GitHub

ammawla/encode-toolkit · 21 stars · license AGPL-3.0 · pushed 2026-09-27 · branch main

API

GET https://markdownregistry.com/api/v1/artifacts/art_57dzlgf3fetqumls
GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/track-experiments
GET https://markdownregistry.com/api/v1/blob/0809a4d26f8955a90e992530b1396423675c0913277108cac8ad33b636a3119b

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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