What is nature-figure?

A workflow for creating or revising scientific figures in Python or R, including multi-part plots and publication files such as SVG, PDF, and TIFF. It is aimed at figures for research papers, including Nature-family journals.

Use it to make, edit, audit, or polish manuscript figures, including multi-panel plots, heat maps, and other journal-ready graphics.

It helps turn data and a research claim into a figure while checking layout, visual consistency, and publication requirements. Scientific figures often need more than a default chart.

nature-figure — Skill for Claude Code by YuanyuanMa03

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 YuanyuanMa03/academic-research-skills --skill nature-figure

Clone the repo

git clone --depth 1 https://github.com/YuanyuanMa03/academic-research-skills

Made for: Claude Code.

Or install nature-figure, the plugin that ships this one along with the rest of its 1 skill.

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.

README.md

[![agentmods](https://agentmods.dev/badge/skills/yuanyuanma03/academic-research-skills/nature-figure/github.svg)](https://agentmods.dev/skills/yuanyuanma03/academic-research-skills/nature-figure)

Your own site

<a href="https://agentmods.dev/skills/yuanyuanma03/academic-research-skills/nature-figure"><img src="https://agentmods.dev/badge/skills/yuanyuanma03/academic-research-skills/nature-figure/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.

Your own site · 80×15

<a href="https://agentmods.dev/skills/yuanyuanma03/academic-research-skills/nature-figure"><img src="https://agentmods.dev/badge/skills/yuanyuanma03/academic-research-skills/nature-figure.svg" alt="Reviewed on agentmods" width="80" height="20"></a>

Per session 149 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.

When invoked 2,579 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 original 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.

Model	Per session	Once invoked
Fable 5.1	$0.00149	$0.02579
Opus 5.5	$0.00060	$0.01032
Sonnet 5.5	$0.00030	$0.00516
Haiku 4.5	$0.00015	$0.00258

Measured today against content hash e2ddb7af7818, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

nature-figure 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 today.

The scan reads SKILL.md. This mod also ships 18 executable files (assets/figures4papers/figure_brainteaser/plot_brute_force.py, assets/figures4papers/figure_brainteaser/plot_correctness_by_category.py, assets/figures4papers/figure_brainteaser/plot_correctness_by_subcategory.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.

Origin

Copies of this mod

2 near-identical copies found in the catalogue:

nature-figure — 98% identical, 2 lines differ
nature-figure — 97% identical, 9 lines differ

plugins/nature-figure/skills/nature-figure/SKILL.md · 191 lines

How it starts

The opening of the file, as written. The whole thing — 191 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Nature Figure Making Skill

A guide for producing publication-quality scientific figures as a visual argument, not as isolated pretty plots. Every figure starts from a claim, an evidence hierarchy, and a review-risk check before code or aesthetics.

The older Python/matplotlib rules in this skill remain valid. The skill now also supports R, especially ggplot2 + patchwork + ComplexHeatmap + ggrepel + svglite/cairo_pdf + ragg. If the user provides a private plotting template collection, use it only as an internal adaptation source and do not reveal its path, filenames, or provenance in user-facing output.

Color policy: prefer unified method families across all panels over maximal hue separation. For dense Nature Machine Intelligence-style figure pages, use the low-saturation NMI pastel family described in references/api.md and reserve green/red mainly for gains, drops, and other directional cues.

First move: figure contract before plotting

Before generating or editing code, establish the contract below.

Backend selection is a blocking gate. If the user has not explicitly chosen Python or R in the current request or provided a clearly language-specific input file/workflow, ask one concise question: Python or R? Then stop and wait for the user's answer. Do not generate mock data, write scripts, create figures, or choose Python/R by default. This overrides general autonomy/default-execution behavior for figure tasks.

The selected backend is exclusive for all figure generation. Once Python or R is selected, every plotting script, preview image, SVG/PDF/TIFF/PNG export, QA render, and visual workaround must be produced by that same backend. Do not use Python to draw a preview for an R figure, and do not use R to draw a preview for a Python figure, even if the selected runtime or packages are missing locally. The non-selected language may only be used for non-visual file inspection or data conversion when it does not open a graphics device, import plotting libraries, create image/vector files, or change the final visual appearance.

Read the full file on GitHub · 191 lines

Files

What ships with it

60 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.

today First seen · 191 lines · 149 tokens per session scan A e2ddb7af7818

Subscribe to this mod's changes

nature-figure is a skill published in the GitHub repository YuanyuanMa03/academic-research-skills (75 stars, last pushed today), licensed MIT. It adds 149 tokens to every session and 2,579 once invoked, about $0.0006 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 2026-10-29.

Design and UX Scientific cnki codex google google-scholar paper

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