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Encode Experiment Search

ASecurity

Use this skill to search ENCODE experiments by assay or free-text keyword and return compact metadata summaries for public epigenomics records.

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  • Added September 8, 2026
ai-agentspythonapidocumentation

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  • api

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Scanned September 8, 2026

npx -y skills add ma-compbio-lab/SkillFoundry --skill encode-experiment-search --agent claude-code

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SKILL.md
---
name: encode-experiment-search
description: Use this skill to search ENCODE experiments by assay or free-text keyword and return compact metadata summaries for public epigenomics records.
---

## Purpose
Search the official ENCODE portal for public experiment metadata and summarize a small result set.

## When to use
- You need a quick ENCODE metadata search starter.
- You want public assay, biosample, and accession metadata for epigenomics planning or triage.

## When not to use
- You need raw file downloads or workflow execution.
- You need full ENCODE schema coverage instead of a compact summary.

## Inputs
- A free-text search term such as `ATAC-seq`.
- A small result limit.

## Outputs
- A JSON summary with ENCODE experiment accessions and key metadata fields.

## Requirements
- Network access to `encodeproject.org`
- Python standard library only

## Provenance
- ENCODE REST API documentation: https://www.encodeproject.org/help/rest-api/

Files in this skill

  • SKILL.md961 B
  • assets/README.md78 B
  • assets/atac_seq_search.json700 B
  • examples/README.md87 B
  • metadata.yaml1 KB
  • refs.md224 B
  • scripts/search_encode_experiments.py5.2 KB
  • tests/test_search_encode_experiments.py1.4 KB

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