Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add GPTomics/bioSkills --skill circos-plotsgit clone --depth 1 https://github.com/GPTomics/bioSkillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/gptomics/bioskills/circos-plots)<a href="https://agentmods.dev/skills/gptomics/bioskills/circos-plots"><img src="https://agentmods.dev/badge/skills/gptomics/bioskills/circos-plots/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/gptomics/bioskills/circos-plots"><img src="https://agentmods.dev/badge/skills/gptomics/bioskills/circos-plots.svg" alt="Reviewed on agentmods" width="80" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00124 | $0.03418 |
| Opus 5.5 | $0.00050 | $0.01367 |
| Sonnet 5.5 | $0.00025 | $0.00684 |
| Haiku 4.5 | $0.00012 | $0.00342 |
Grade A, and why
bio-data-visualization-circos-plots scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 1mo ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
Copies of this mod
1 near-identical copy found in the catalogue:
- bio-data-visualization-circos-plots — 89% identical, 12 lines differ
How it starts
The opening of the file, as written. The whole thing — 279 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Version Compatibility
Reference examples tested with: circlize 0.4.16+ (R), pyCirclize 1.4+ (Python), Circos 0.69-9 (Perl CLI), ComplexHeatmap 2.18+ (uses circlize for color mapping).
Before using code patterns, verify installed versions match. If versions differ:
- R:
packageVersion('<pkg>')then?function_name - Python:
pip show <package>thenhelp(module.function)
If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.
Circular Genome Plots (Circos)
"Make a circos plot" -> Render genome chromosomes around a circle with stacked tracks (histogram, scatter, heatmap) and arcs/chords showing interactions. Krzywinski 2009 Genome Res 19:1639 introduced the genre for genome-scale comparative views. The single decision that matters: does the circular layout convey meaning that Cartesian cannot?
- R:
circlize::circos.initializeWithIdeogram+circos.genomicTrack*(Gu 2014) - Python:
pyCirclize.Gcircle - CLI: Circos (Perl); config-driven; most flexible but steepest learning
The Single Most Important Modern Insight -- Circular Plots Often Hide What Cartesian Reveals
Cleveland-McGill 1984 J Am Stat Assoc 79:531 effectiveness rankings establish that position-on-common-scale (Cartesian) is the most accurate visual channel; circular position requires mental "unwrapping" and impairs precise value comparison. Heer-Bostock 2010 CHI replicated the ranking in modern crowd studies. Use circular only when adjacency on the circle conveys meaning that linear cannot.
Use circular ONLY when:
- Chromosome adjacency matters (whole-genome SVs, Hi-C contacts where genome circularity is the geometry)
- Pairwise interactions between many entities (chord diagrams; chromosome translocations)
- Aesthetic / overview infographic for cover figure
Do NOT use circular for:
- Comparing values across categories (Cartesian bar/dot wins)
- Time series (linear axis wins)
- Anything where precise value reading matters
What ships with it
3 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 1mo ago First seen · 279 lines · 124 tokens per session scan A dcc09528d069
bio-data-visualization-circos-plots is a skill published in the GitHub repository GPTomics/bioSkills (1,226 stars, last pushed 2mo ago), licensed MIT. It adds 124 tokens to every session and 3,418 once invoked, about $0.0005 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
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