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 fmschulz/omics-skills --skill bio-logicgit clone --depth 1 https://github.com/fmschulz/omics-skillsWrote 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/fmschulz/omics-skills/bio-logic)<a href="https://agentmods.dev/skills/fmschulz/omics-skills/bio-logic"><img src="https://agentmods.dev/badge/skills/fmschulz/omics-skills/bio-logic/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/fmschulz/omics-skills/bio-logic"><img src="https://agentmods.dev/badge/skills/fmschulz/omics-skills/bio-logic.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
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 | $0.00036 | $0.02078 |
| Opus 5.5 | $0.00014 | $0.00831 |
| Sonnet 5.5 | $0.00007 | $0.00416 |
| Haiku 4.5 | $0.00004 | $0.00208 |
Grade A, and why
bio-logic 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 23d 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.
How it starts
The opening of the file, as written. The whole thing — 231 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Bio-Logic: Scientific Reasoning Evaluation
Use structured frameworks to evaluate scientific claims, methodology, and evidence strength.
Instructions
- Identify the task (claim assessment, paper critique, study design review, project interpretation, or hypothesis revision).
- For project work, maintain a hypothesis register with at least 5 distinct active hypotheses until the project is no longer exploratory.
- After each major intermediate result, reflect on what changed, revise hypothesis status, and identify the next discriminating check.
- When findings need context, pair this reasoning with a literature-search skill such as
/polars-dovmed, then revise hypotheses against the literature. - Select the study-type profile before applying a checklist. Do not grade a computational benchmark, phylogenetic analysis, or evolutionary inference as if it were an intervention trial.
- Structure output using the provided format.
Study-Type Profiles
| Profile | Main evidence checks | Rating language |
|---|---|---|
| Intervention | allocation, controls, adherence, attrition, estimand, harms | GRADE when the review question and evidence synthesis support it |
| Observational or quasi-experimental | identification assumptions, temporality, confounding, negative controls, sensitivity analyses | risk-of-bias plus causal-confidence statement |
| Computational or machine learning | data provenance, leakage, splits, baselines, calibration, external validation, reproducibility | computational evidence confidence |
| Evolutionary or comparative genomics | orthology, taxon/reference sampling, model fit, support, contamination, topology sensitivity | phylogenetic/comparative evidence confidence |
| Descriptive or exploratory omics | sampling, measurement, multiple testing, effect sizes, replication, alternative explanations | descriptive confidence; avoid causal labels |
Project Hypothesis Loop
Use this loop for omics projects, unexpected results, exploratory analyses, and any request that asks what results mean.
What ships with it
7 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.
- 23d ago Changed · -3 tokens per session e93067015278
- 1mo ago Changed · +7 tokens per session 1479dc270eab
- 1mo ago First seen · 231 lines · 32 tokens per session scan A 1e130aaf8b01
bio-logic is a skill published in the GitHub repository fmschulz/omics-skills (11 stars, last pushed 23d ago), licensed MIT. It adds 36 tokens to every session and 2,078 once invoked, about $0.0001 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 2026-08-31.
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