visualization-workflow skillB
visualization-workflow is agent-read markdown (skill) from ammawla/encode-toolkit: Comprehensive guide for visualizing ENCODE data including deeptools heatmaps, IGV screenshots, UCSC track hubs, and publication-quality plots. Use when users need to create visualizations of ChIP-seq signal, peak landscapes, genome browser views, or any visual representation of ENCODE data. Trigger on: heatmap, visualization, genome browser, track hub, IGV, deeptools, signal plot, peak visualization, profile plot, publication figure, bigWig visualization..
Indexed from public GitHub and served as immutable, content-addressed versions. Install it pinned to an exact SHA-256 with the mdr CLI, and every file is verified against the hash recorded here before it reaches your agent. The deterministic audit below grades the latest version, and the same file always earns the same grade.
What the file says
# Visualization Workflow for ENCODE Data ## When to Use - User wants to create genome browser visualizations, heatmaps, or signal track plots from ENCODE data - User asks about "visualization", "genome browser", "deeptools", "heatmap", "signal track", or "IGV" - User needs to generate publication-ready figures from ChIP-seq, ATAC-seq, or other genomic data - User wants to compare signal profiles across conditions, tissues, or histone marks - Example queries: "visualize H3K27ac signal at promoters", "create a heatmap of ChIP-seq signal", "set up a UCSC track hub for my data" Help the user create informative, publication-quality visualizations of ENCODE genomic data. This skill covers four major visualization approaches: deepTools heatmaps and profiles, IGV genome browser views, UCSC track hubs for sharing, and publication-quality static plots using R and Python. Visualization is not decorative -- it is an essential analytical step that reveals patterns invisible in summary statistics and validates computational findings. ## Literature Foundation | Reference | Journal | Key Contribution | DOI | Citations | |-----------|---------|-----------------|-----|-----------| …
Read the whole file at its exact version.
How to install
mdr add ammawla/encode-toolkit/visualization-workflow@git:20260920.6050003mdr add ammawla/encode-toolkit/visualization-workflow@sha256:75e42db795cc2574Pin to a label to follow the author's releases, or to a sha256 to freeze the exact bytes forever. Either way the resolved hash is written to mdr.lock, and mdr install reproduces it on any machine.
[](https://markdownregistry.com/a/art_zwhmhwqeztwvrup6)
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Versions
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260920.6050003 latest | 2026-09-20 | 6050003 | 22,578 B | B | view · diff |
| git:20260920.ce7840d | 2026-09-20 | ce7840d | 22,207 B | B | view · diff |
| git:20260312.be32706 | 2026-03-12 | be32706 | 22,202 B | B | view |
Audit of the latest version
- fail: No script tag (matched: <script)
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (22578 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
Source
ammawla/encode-toolkit · 20 stars · license AGPL-3.0 · pushed 2026-09-21 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_zwhmhwqeztwvrup6 GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/visualization-workflow GET https://markdownregistry.com/api/v1/blob/75e42db795cc2574613de06b758cfcae0ee6c3240d3dd5d6d006466050c00f63
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