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 TianGzlab/OmicsClaw --skill proteomics-degit clone --depth 1 https://github.com/TianGzlab/OmicsClawWrote 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/tiangzlab/omicsclaw/proteomics-de)<a href="https://agentmods.dev/skills/tiangzlab/omicsclaw/proteomics-de"><img src="https://agentmods.dev/badge/skills/tiangzlab/omicsclaw/proteomics-de/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/tiangzlab/omicsclaw/proteomics-de"><img src="https://agentmods.dev/badge/skills/tiangzlab/omicsclaw/proteomics-de.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector warn
SkillSpector: 1 finding, up to high
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- high Rogue Agent · line 3 Skill modifies its own code, configuration, or behavior at runtime. Self-modification enables an agent to escalate privileges, disable safety constraints, or install persistent backdoors.Fix: Prevent the skill from modifying its own code, SKILL.md, or configuration files. Treat skill files as read-only at runtime.
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 | $0.00079 | $0.01114 |
| Opus 5.5 | $0.00032 | $0.00446 |
| Sonnet 5.5 | $0.00016 | $0.00223 |
| Haiku 4.5 | $0.00008 | $0.00111 |
Grade A, and why
proteomics-de 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 20d 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 — 133 lines — stays where its author put it; the contents beside it link to each section on GitHub.
proteomics-de
When to use
ttest is the CLI default; welch and mann_whitney are alternatives. Groups default to the first and second half of columns. Use existing search-engine tables; this skill does not search raw spectra.
Use from a step
from skills._sdk.notebook import load_skill, write_output
library = load_skill('proteomics-de')
data = library.demo_data(random_state=42)
result = library.differential_abundance(data)
write_output(result, 'tables/differential_abundance.csv')
For real data, use read_input and pass any read_table helper as reader=.
The executable examples/example_step.py also checks the result and writes a Figure.
API
differential_abundance(data: pd.DataFrame, *, group1: list | None=None, group2: list | None=None, method: str='ttest') -> pd.DataFrame
Compare groups and return a new table with group2-minus-group1 log2 fold changes.
:param data: Protein-indexed, sample-column linear intensities; nonpositive values are missing. :param group1: First group columns; None uses the first half as in the CLI. :param group2: Second group columns; None uses the second half as in the CLI. :param method: CLI default ttest; welch uses unequal variance and mann_whitney tests ranks. :returns: Per-protein statistics and BH-adjusted p values. :raises ValueError: Groups overlap, are empty, or the protein index is not unique.
significant(results: pd.DataFrame, *, alpha: float=0.05, log2fc_threshold: float=0.0) -> pd.DataFrame
Select significant proteins from an existing comparison.
:param results: Differential abundance results with padj and log2fc. :param alpha: CLI default 0.05; strict upper bound on BH-adjusted p values. :param log2fc_threshold: CLI default 0 disables the absolute fold-change filter. :returns: A new table retaining selected rows. :raises ValueError: Thresholds are outside their allowed ranges.
run_info(table: pd.DataFrame, *, keep: bool=True) -> dict
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.
- 20d ago Changed · +30 lines 4d275066c2df
- 1mo ago First seen · 103 lines · 79 tokens per session scan A 7cc16bdc5cc4
proteomics-de is a skill published in the GitHub repository TianGzlab/OmicsClaw (161 stars, last pushed 20d ago), licensed Apache-2.0. It adds 79 tokens to every session and 1,114 once invoked, about $0.0003 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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