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opus-et-analysis

opus-et-analysis is a skill for Claude Code, Codex from alncat/opusTomo. It costs 73 tokens per session (6,075 once invoked), scanned A, original, GPL-3.0.

A guide to processing and analysing cryo-electron tomography data, a method for studying three-dimensional biological structures with an electron microscope. It works with training results and related scientific data files.

In plain words
What is it for?
Use it to analyse training results with PCA or k-means, generate volumes from latent codes, parse poses, and manipulate STAR files.
Why use it?
It helps turn model outputs into clusters, volumes, poses, and files that can be examined or used in later analysis.

Skill for Claude CodeCodex

Which agent this was written for is unclear — body not stored (licence); the path alone says nothing.

not rated 11repo 7d ago A scan 73 tokens GPL-3.0

Good fit Use it to analyse training results with PCA or k-means, generate volumes from latent codes, parse poses, and manipulate STAR files.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/alncat/opustomo/opus-et-analysis
View source ↗ alncat/opusTomo
Install

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.

Any agent
npx skills add alncat/opusTomo --skill opus-et-analysis
Clone the repo
git clone --depth 1 https://github.com/alncat/opusTomo

Made for: Claude Code, Codex.

Wrote 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.

agentmods badge for opus-et-analysis

README.md
[![agentmods](https://agentmods.dev/badge/skills/alncat/opustomo/opus-et-analysis/github.svg)](https://agentmods.dev/skills/alncat/opustomo/opus-et-analysis)
Your own site
<a href="https://agentmods.dev/skills/alncat/opustomo/opus-et-analysis"><img src="https://agentmods.dev/badge/skills/alncat/opustomo/opus-et-analysis/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.

agentmods 80×15 button for opus-et-analysis

Your own site · 80×15
<a href="https://agentmods.dev/skills/alncat/opustomo/opus-et-analysis"><img src="https://agentmods.dev/badge/skills/alncat/opustomo/opus-et-analysis.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 73 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 6,075 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin unknown No closer match found in the catalogue.
Token cost

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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00073 $0.06075
Opus 5.5 $0.00029 $0.02430
Sonnet 5.5 $0.00015 $0.01215
Haiku 4.5 $0.00007 $0.00607

Measured 2mo ago against content hash 818fc88543e9, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

opus-et-analysis 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 2mo ago.

The scan reads SKILL.md. This mod also ships 3 executable files (scripts/exclude_stars.py, scripts/extract_config.py, scripts/generate_train_cmd.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

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.

opus-et-analysis/SKILL.md · 622 lines

The source is not reproduced here

Licensed GPL-3.0

The repository is licensed GPL-3.0, which this catalogue does not treat as permission to reproduce the file. Read it at the source.

Read it on GitHub

Files

What ships with it

4 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.

Changes

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.

  1. 2mo ago First seen · 622 lines · 73 tokens per session scan A 818fc88543e9

Subscribe to this mod's changes

opus-et-analysis is a skill published in the GitHub repository alncat/opusTomo (11 stars, last pushed 7d ago), licensed GPL-3.0. It adds 73 tokens to every session and 6,075 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 2026-08-30.

Scientificcryo-etdynamicsheterogeneity-analysisneural-volumessubtomogramtemplate-matching
Related

opus-et-analysis compared with skills from other repositories

opus-et-analysis next to 6 skills from other repositories
ModTypeStarsLast pushLicenceScanTokensWorks with
opus-et-analysisalncat/opusTomoSkill117d agoGPL-3.0A73Claude Code, Codex
dart-iodartsim/dartSkill1.2kyesterdayBSD-2-ClauseA27Claude Code, Codex
spatial-velocityTianGzlab/OmicsClawSkill1611mo agoApache-2.0A91Claude Code, Codex
spatial-velocityShangBioLab/SpatialClawSkill115mo agoApache-2.0A17Claude Code, Codex
instrument-data-to-allotropeanthropics/knowledge-work-pluginsSkill35k2d agoApache-2.0A123Claude Code
exploratory-data-analysisK-Dense-AI/scientific-agent-skillsSkill56k4d agoMITA83Claude Code
matlabK-Dense-AI/scientific-agent-skillsSkill56k4d agoMITA44Claude Code