bio-data-visualization-sequence-logos SKILL.md skillA
bio-data-visualization-sequence-logos from pku-yuangroup/openai4s is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add pku-yuangroup/openai4s/bio-data-visualization-sequence-logos@git:20260821.2d1b678Pins git:20260821.2d1b678 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- pku-yuangroup/openai4s
- Path
skills/bioskills/bio-data-visualization-sequence-logos/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260821.2d1b678, committed Aug 21, 2026
- Size
- 13,256 bytes
- Repository stars
- 662
- License
- MIT
Build sequence logos from aligned DNA, RNA, or protein motifs using ggseqlogo (R), Logomaker (Python), or WebLogo with explicit bits vs probability encoding, background-frequency correction, custom alphabets, and multi-logo stacking. Use when visualizing motif PWMs (TF binding, splice sites, CRISPR spacers), aligned-position composition, or comparing two motif sets.
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
## Version Compatibility
Reference examples tested with: ggseqlogo 0.2 (CRAN; per Wagih 2017), Logomaker 0.8+ (Python), WebLogo 3.7+ (CLI), Biopython 1.83+ (motif parsing), MEME suite 5.5+.
Before using code patterns, verify installed versions match. If versions differ:
- Python: `pip show <package>` then `help(module.function)` to check signatures
- R: `packageVersion('<pkg>')` then `?function_name`
If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.
# Sequence Logos
**"Plot a sequence motif"** -> Render a per-position stack of letters whose total height encodes information content (Schneider-Stephens 1990 *Nucleic Acids Res* 18:6097) and individual letter height is proportional to base/aa frequency. The information-content encoding makes conserved positions visually tall and variable positions visually short — the visual is *the conservation profile*.
- R: `ggseqlogo::ggseqlogo` (Wagih 2017 *Bioinformatics* 33:3645)
- Python: `logomaker.Logo`
- CLI: `weblogo` (Crooks 2004 *Genome Res* 14:1188)
…Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-data-visualization-sequence-logos@sha256:411a452b85e73d94The line at the top of this page pins the label git:20260821.2d1b678, 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_ocxcy24iys4x5czx)
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Versions
The registry has recorded 1 version of this file, committed on Aug 21, 2026.
Audit of the latest version
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- pass: No link to a raw IP address
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Source
pku-yuangroup/openai4s · 662 stars · license MIT · pushed 2026-11-03 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ocxcy24iys4x5czx GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-data-visualization-sequence-logos GET https://markdownregistry.com/api/v1/blob/411a452b85e73d94b2773d2003bfca7ae6233e902fe73099ff7d3b5b00c0feea
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.