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TingxiYu/academic-figure-skill

A skill for academic research figure generation that autonomously handles the full workflow — data understanding, chart type recommendation, and format-compliant generation.

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Verified commit 1df9940dd01ac939f072b12fe28d6353b79b90f9

557GitHub stars
12stars in 7 days
1skill in this repository
0commits in 30 days

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Individual skills in this repository

How it works

academic-figure-skill

When your agent uses it

Academic-grade scientific figure creation for Nature/Cell/Science journals. Use when the user asks to create, polish, review, or export scientific figures for manuscript submission. DO NOT trigger for: interactive dashboards (Plotly/Bokeh/Altair), exploratory data analysis without publication intent, math function plots, pie/3D charts, PowerPoint slides, or Illustrator/Figma-first design. SKIP requests about statistical testing, data cleaning, literature review, or code debugging — these are not figure-making tasks.

What it loads into context

Frontmatter

111 tokens

Always available to the agent

SKILL.md

6,718 tokens

When the skill is activated

Reference documents

38,204 tokens

Loaded on request

Token counts are estimates. Scripts run separately; they are not counted as reference context.

The playbook

  1. Design Principles
  2. Complete Workflow
  3. Reviewer Simulation Mode
  4. Anti-Pattern Recognition
  5. Figure Type Routing
  6. Eval & Quality Tracking
  7. Cross-Platform Adapters
  8. References

Scripts executed separately

  • assets/figures/AUROC/plot_AUROC1.py
  • assets/figures/AUROC/plot_AUROC2.py
  • assets/figures/AUROC/plot_AUROC3.py
  • assets/figures/BarAblation/plot_bar_ablation.py
  • assets/figures/BarAblation/plot_bars_ablation.py
  • assets/figures/BarAblation/plot_comparison_ablation.py
  • assets/figures/BarCategorical/plot_correctness_by_category.py
  • assets/figures/BarCategorical/plot_correctness_by_subcategory.py
  • assets/figures/BarComparison/plot_comparison_GeneRegulatory.py
  • assets/figures/BarComparison/plot_comparison_Trajectory.py
  • assets/figures/BarComparison/raw_data.py
  • assets/figures/BarComposition/plot_brute_force.py
  • assets/figures/BarComposition/plot_rewriting.py
  • assets/figures/BarDistribution/plot_selfcorrection_math.py
  • assets/figures/ConfusionMatrix/plot_SectorConfusionMatrix.py
  • assets/figures/GroupedBarChart/plot_GroupedBarChartv1.py
  • assets/figures/GroupedBarChart/plot_GroupedBarChartv2.py
  • assets/figures/GroupedBarChart/plot_GroupedBarChartv3.py
  • assets/figures/GroupedBarChart/plot_GroupedBarChartv4.py
  • assets/figures/GroupedViolin/plot_GroupedViolin.py
  • assets/figures/LineTrend/plot_posttraining.py
  • assets/figures/LineTrend/plot_sweep.py
  • assets/figures/LineTrend/plot_trend.py
  • assets/figures/Manifold/diffusion_swiss_roll.py
  • assets/figures/Manifold/plot_hole_manifold.py
  • assets/figures/Manifold/plot_manifold.py
  • assets/figures/MarginalDensity/plot_VariableCorrelation.py
  • assets/figures/MarkerGeneDotPlot/plot_MarkerGeneDotPlot.py
  • assets/figures/Radar/plot_comparison_radar.py
  • assets/figures/SankeyDiagram/plot_SankeyDiagram.py
  • assets/figures/StackedBarScatter/plot_StackedBarScatter.py
  • assets/figures/Violin/plot_Violin.py
  • assets/figures/heatmap/plot_comparison.py
  • assets/figures/heatmap/plot_composition.py
  • assets/figures/volcano/rnaseq_deseq2_standard.py
  • scripts/ab_test.py
  • scripts/check_colors.py
  • scripts/check_dimensions.py
  • scripts/check_export.py
  • scripts/check_figure.py
  • scripts/check_fontsize.py
  • scripts/check_references.py
  • scripts/compose.py
  • scripts/e2e_runner.py
  • scripts/eval_runner.py
  • scripts/generate_adapters.py
  • scripts/generate_atlas.py
  • scripts/qa_coverage.py
  • scripts/qa_validator.py
  • scripts/run_ab_tests.py
  • scripts/trigger_benchmark.py

Files

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  • SKILL.mdcore28,610 bytes
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  • SKILL.mdcore28,610 bytes
  • SKILL.mdcore28,610 bytes
  • SKILL.mdcore28,610 bytes
  • SKILL.mdcore28,610 bytes
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Read SKILL.md

# Academic Figure Skill Hub

Academic Figure Skill generates publication-grade scientific figures for Nature/Cell/Science family journals. Every figure starts from the scientific question, not from a template.

## Design Principles

**1. One figure, one core message.**
CNS reviewers skim fast. A figure must convey its main conclusion in 3 seconds. Remove gridlines, borders, and legend entries that dilute the core message. Default to minimal, not maximal.

**2. Restrained color > abundant color.**
Default palettes (matplotlib tab10, ggplot2 hue_pal, Excel colors) signal "not designed" instantly. Use 2-4 semantic main colors + 1 accent. See `references/color-palettes.md`.

**3. Design for print, not screen.**
Journal column widths are fixed (89 mm single, 183 mm double). Set figure dimensions at creation time — never scale down post-render.
View the complete source on GitHub

Skills included

  • academic-figure-skill

Repository facts

License
Apache-2.0
Created
Jul 7, 2026
Last pushed
Jul 12, 2026
Forks
27
Open issues
2
Project activity
Slowing

Before you install

Local scripts

Automated signals, not a guarantee

Checked Nov 4, 2026

Not fully analyzed: some files were too long, unreadable or missing. This never lowers the level.

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LICENSE

  • Network accessline 1
    Apache License                            Version 2.0, January 2004                         http://www.apache.org/licenses/
  • Network accessline 3
    http://www.apache.org/licenses/
  • Network accessline 195
    http://www.apache.org/licenses/LICENSE-2.0

README.md

  • Network accessline 6
    </p>   <p>     <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>
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    <p>     <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>     <a href="#安装与使用"><img alt="Install" src="https://img.shields.io/badge/install-Claude%20Code%20%7C%20Codex%20%7C%20Cursor%20%
  • Network accessline 8
    <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>
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    <a href="#安装与使用"><img alt="Install" src="https://img.shields.io/badge/install-Claude%20Code%20%7C%20Codex%20%7C%20Cursor%20%7C%20Copilot-111827"></a>
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    <a href="#图表类型全览"><img alt="Figure Types" src="https://img.shields.io/badge/figures-29-0ea5e9"></a>
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    <a href="#assets-figure-atlas"><img alt="QA" src="https://img.shields.io/badge/QA-4%20pass%2030%2B%20checks-success"></a>
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    <a href="README_EN.md"><img alt="Language" src="https://img.shields.io/badge/语言-English%20%7C%20中文-1f6feb"></a>
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    mkdir -p ~/ai-skills cd ~/ai-skills git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 148
    cd ~/ai-skills git clone https://github.com/TingxiYu/academic-figure-skill.git cp -r academic-figure-skill ~/.claude/skills/
  • Network accessline 149
    git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 176
    git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 187
    从 https://github.com/TingxiYu/academic-figure-skill.git 安装 Codex skill。
  • Network accessline 197
    git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 208
    git clone https://github.com/TingxiYu/academic-figure-skill.git

README_EN.md

  • Network accessline 6
    </p>   <p>     <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>
  • Network accessline 7
    <p>     <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>     <a href="#installation"><img alt="Install" src="https://img.shields.io/badge/install-Claude%20Code%20%7C%20Codex%20%7C%20Cur
  • Network accessline 8
    <a href="LICENSE"><img alt="License" src="https://img.shields.io/badge/license-Apache--2.0-2ea44f"></a>
  • Network accessline 9
    <a href="#installation"><img alt="Install" src="https://img.shields.io/badge/install-Claude%20Code%20%7C%20Codex%20%7C%20Cursor%20%7C%20Copilot-111827"></a>
  • Network accessline 10
    <a href="#figure-type-gallery"><img alt="Figure Types" src="https://img.shields.io/badge/figures-29-0ea5e9"></a>
  • Network accessline 11
    <a href="#quality-assessment"><img alt="QA" src="https://img.shields.io/badge/QA-4%20pass%2030%2B%20checks-success"></a>
  • Network accessline 12
    <a href="README.md"><img alt="Language" src="https://img.shields.io/badge/语言-中文%20%7C%20English-1f6feb"></a>
  • Network accessline 147
    mkdir -p ~/ai-skills cd ~/ai-skills git clone https://github.com/TingxiYu/academic-figure-skill.git academic-figure-skill
  • Network accessline 148
    cd ~/ai-skills git clone https://github.com/TingxiYu/academic-figure-skill.git academic-figure-skill cp -r academic-figure-skill ~/.claude/skills/
  • Network accessline 149
    git clone https://github.com/TingxiYu/academic-figure-skill.git academic-figure-skill
  • Network accessline 176
    git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 187
    Install the Codex skill from https://github.com/TingxiYu/academic-figure-skill.git.
  • Network accessline 197
    git clone https://github.com/TingxiYu/academic-figure-skill.git
  • Network accessline 208
    git clone https://github.com/TingxiYu/academic-figure-skill.git

assets/figures/AUROC/plot_AUROC1.py

  • Executable scriptline 1
    Executable file

assets/figures/AUROC/plot_AUROC2.py

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assets/figures/AUROC/plot_AUROC3.py

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assets/figures/BarAblation/plot_bar_ablation.py

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assets/figures/BarAblation/plot_bars_ablation.py

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    Executable file

assets/figures/BarAblation/plot_comparison_ablation.py

  • Executable scriptline 1
    Executable file

assets/figures/BarCategorical/plot_correctness_by_category.py

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assets/figures/BarCategorical/plot_correctness_by_subcategory.py

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assets/figures/BarComparison/plot_comparison_GeneRegulatory.py

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assets/figures/BarComparison/plot_comparison_Trajectory.py

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assets/figures/BarComparison/raw_data.py

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assets/figures/BarComposition/plot_brute_force.py

  • Executable scriptline 1
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assets/figures/BarComposition/plot_rewriting.py

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assets/figures/BarDistribution/plot_selfcorrection_math.py

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assets/figures/ConfusionMatrix/plot_SectorConfusionMatrix.py

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assets/figures/GroupedBarChart/plot_GroupedBarChartv1.py

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assets/figures/GroupedBarChart/plot_GroupedBarChartv2.py

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assets/figures/GroupedBarChart/plot_GroupedBarChartv3.py

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assets/figures/GroupedBarChart/plot_GroupedBarChartv4.py

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assets/figures/GroupedViolin/plot_GroupedViolin.py

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assets/figures/LineTrend/plot_posttraining.py

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assets/figures/LineTrend/plot_sweep.py

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assets/figures/LineTrend/plot_trend.py

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assets/figures/Manifold/diffusion_swiss_roll.py

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assets/figures/Manifold/plot_hole_manifold.py

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assets/figures/Manifold/plot_manifold.py

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assets/figures/MarginalDensity/plot_VariableCorrelation.py

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assets/figures/MarkerGeneDotPlot/plot_MarkerGeneDotPlot.py

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assets/figures/Radar/plot_comparison_radar.py

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assets/figures/SankeyDiagram/plot_SankeyDiagram.py

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assets/figures/StackedBarScatter/plot_StackedBarScatter.py

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assets/figures/Violin/plot_Violin.py

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assets/figures/heatmap/plot_comparison.py

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assets/figures/heatmap/plot_composition.py

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assets/figures/volcano/rnaseq_deseq2_standard.py

  • Executable scriptline 1
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scripts/ab_test.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_colors.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_dimensions.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_export.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_figure.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_fontsize.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/check_references.py

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    #!/usr/bin/env python3

scripts/compose.py

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  • Dangerous shell operationline 419
    eval(parse(text=Sys.getenv("CNS_PNG_DEVICE")))

scripts/e2e_runner.py

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    #!/usr/bin/env python3

scripts/eval_runner.py

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    #!/usr/bin/env python3

scripts/generate_adapters.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/generate_atlas.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/qa_coverage.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/qa_validator.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/run_ab_tests.py

  • Executable scriptline 1
    #!/usr/bin/env python3

scripts/trigger_benchmark.py

  • Executable scriptline 1
    #!/usr/bin/env python3

How the signals fit together

Facts from a static read of the files at the pinned commit. They describe what the code does, not why.

Some files could not be read; the facts below still hold.

Signal confidence: 80 facts

and 30 more

Works with

Agent compatibility, from the files in this repository
AgentStatusEvidenceInstall to
Claude CodeCompatibleStandard SKILL.md SKILL.md.claude/skills/<skill-name>/
CodexCompatibleStandard SKILL.md SKILL.md.agents/skills/<skill-name>/
CursorCompatibleStandard SKILL.md SKILL.md.cursor/skills/<skill-name>/
Gemini CLICompatibleStandard SKILL.md SKILL.md.gemini/skills/<skill-name>/
GitHub CopilotCompatibleStandard SKILL.md SKILL.md.github/skills/<skill-name>/
OpenCodeCompatibleStandard SKILL.md SKILL.md.opencode/skills/<skill-name>/
  • Native The repository ships a manifest, folder or frontmatter field for this agent.
  • Compatible A standard SKILL.md that this agent can read.
  • Unknown No evidence either way.

Derived automatically from paths, manifests and frontmatter. Not tested on each agent.