Nature Figure

What it does

When your agent uses it

• The user asks to create
• Polish manuscript figures
• Multi-panel scientific plots
• Journal-ready SVG/PDF/TIFF outputs

Example prompts

• “Python or R?”
• “/nature-figure”

Requirements

• Python 3

Workflow steps

5 steps, taken from the first numbered list in SKILL.md.

1. 1Core conclusion: write the one-sentence claim the figure must defend.
2. 2Evidence chain: map each planned panel to the claim, and drop panels that do not carry
3. 3Archetype: classify the figure as quantitative grid, schematic-led composite,
4. 4Backend: use the selected Python or R track exclusively for all figure drawing,
5. 5Journal/export contract: set final dimensions, editable text, source data, statistics,

What it can do on your machine

Read from SKILL.md and the folder at commit d57c708. It shows what the files ask for, not the result of running them.

• Tool permissions

  Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.

  From allowed-tools in the SKILL.md frontmatter.

• Runs code

  No scripts in the folder and no shell commands in SKILL.md (its code samples are python and r).

  From the folder's file list and the shell code blocks in SKILL.md.

• Network

  No URLs in SKILL.md.

  From URLs in SKILL.md, links to its own repository left out.

• Credentials

  Names no API keys, tokens, secrets or passwords.

  From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.

Context cost

Nature Figure loads about 2.7k tokens when it runs, and up to ~24k if it reads all its reference files. Until then it costs about 170 tokens; SKILL.md has 1,087 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it

~170

When it runs · the whole SKILL.md, loaded when a task matches

~2.7k

With references · SKILL.md plus every file in references/, read only if the agent opens them

~24k

Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.

Safety

Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.

SKILL.md

The full file from Citrus-bit/Anaxa at commit d57c708, republished under its MIT licence (© Citrus-bit). 1,087 words, ~2,730 tokens.

name

nature-figure

description

Submission-grade Nature/high-impact journal figure workflow for Python or R. Use whenever the user asks to create, revise, audit, or polish manuscript figures, multi-panel scientific plots, or journal-ready SVG/PDF/TIFF outputs, especially for Nature-family or other high-impact journals. Before plotting, define the figure's conclusion, evidence logic, export needs, and review risks. If the user has not chosen Python or R, ask "Python or R?" and stop. Use only the selected backend for figure generation, previewing, exporting, and QA. Supports matplotlib/seaborn and ggplot2/patchwork/ComplexHeatmap. Not for dashboards or Illustrator/Figma-first infographics.

import matplotlib as mpl
import matplotlib.pyplot as plt

mpl.rcParams.update({
    "font.family": "sans-serif",
    "font.sans-serif": ["Arial", "Helvetica", "DejaVu Sans", "sans-serif"],
    "svg.fonttype": "none",     # editable text in SVG
    "pdf.fonttype": 42,         # editable TrueType text in PDF
    "font.size": 7,             # use 15-24 only for large slide-sized panels
    "axes.spines.right": False,
    "axes.spines.top": False,
    "axes.linewidth": 0.8,
    "legend.frameon": False,
})

def save_pub_py(fig, filename, dpi=600):
    fig.savefig(f"{filename}.svg", bbox_inches="tight")
    fig.savefig(f"{filename}.pdf", bbox_inches="tight")
    fig.savefig(f"{filename}.tiff", dpi=dpi, bbox_inches="tight")

library(ggplot2)
library(patchwork)

theme_set(
  theme_classic(base_size = 6.5, base_family = "Arial") +
    theme(
      axis.line = element_line(linewidth = 0.35, colour = "black"),
      axis.ticks = element_line(linewidth = 0.35, colour = "black"),
      legend.title = element_text(size = 6.2),
      legend.text = element_text(size = 5.8),
      strip.text = element_text(size = 6.2, face = "bold"),
      plot.title = element_text(size = 7, face = "bold"),
      panel.grid = element_blank()
    )
)

save_pub_r <- function(plot, filename, width_mm = 183, height_mm = 120, dpi = 600) {
  w <- width_mm / 25.4
  h <- height_mm / 25.4
  svglite::svglite(paste0(filename, ".svg"), width = w, height = h)
  print(plot)
  dev.off()
  grDevices::cairo_pdf(paste0(filename, ".pdf"), width = w, height = h, family = "Arial")
  print(plot)
  dev.off()
  ragg::agg_tiff(paste0(filename, ".tiff"), width = w, height = h, units = "in", res = dpi)
  print(plot)
  dev.off()
}

© Citrus-bit, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file

Files

SKILL.md and 32 other files (references, assets) in skills/public/nature-figure of Citrus-bit/Anaxa.

• SKILL.md
• .gitignore
• README.md
• THIRD_PARTY_LICENSE.txt
• assets/chart-atlas/atlas-01-bar-charts.png
• assets/chart-atlas/atlas-02-line-trends.png
• assets/chart-atlas/atlas-03-heatmaps.png
• assets/chart-atlas/atlas-04-scatter-bubble.png
• assets/chart-atlas/atlas-05-radar-polar.png
• assets/chart-atlas/atlas-06-distributions.png
• assets/chart-atlas/atlas-07-forest-interval.png
• assets/chart-atlas/atlas-08-area-stacked.png
• assets/chart-atlas/atlas-09-image-plates.png
• assets/chart-atlas/atlas-10-network-matrix.png
• assets/gallery/fig1-material-mechanism-rich.png
• assets/gallery/fig2-spatial-imaging-rich.png
• assets/gallery/fig3-in-vivo-efficacy-rich.png
• assets/gallery/fig4-single-cell-systems-rich.png
• … and 15 more

Open the folder on GitHubat commit d57c708

Used in 2 other repositories

We found 2 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 2 other GitHub owners. This page covers the copy in Citrus-bit/Anaxa, which our catalogue first saw on October 7, 2026.

• jing1312/nature-figure-skillskills/nature-figure
• franklee16/academic-research-skillsnature-skills-main/nature-figure