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Agent skill

Pnasnexus Writing

by brycewang-stanford in brycewang-stanford/Awesome-Journal-Skills

A skill your agent uses to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered…

MITAuto-check passedResearch & Science

Install Pnasnexus Writing

skills CLI
$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-writing -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI
$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-writing --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy
$ git clone --depth 1 https://github.com/brycewang-stanford/Awesome-Journal-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/PNAS-Nexus-Skills/skills/pnasnexus-writing .claude/skills/pnasnexus-writing && rm -rf skills-src

Use ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.

Claude Code skills documentation · loads skills from .claude/skills/

Facts

Skill name
pnasnexus-writing
GitHub stars
1.2k
Token cost
~1.6k tokens
SKILL.md length
749 words
Files
1
Skills in repo
2,387
Repo updated
First seen
Licence
MIT

At a glance

A skill your agent uses to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered…

  • Works in 3 steps: choose the article type (this sets the… → PNAS Nexus main-text order → classification (required at submission)
  • Choose the PNAS Nexus article type
  • SKILL.md covers When to trigger, Step 1: choose the article…, Step 2: PNAS Nexus main-text… and Materials and Methods stays…, plus 6 more sections
  • Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md

What it does

Pnasnexus Writing is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered Report — keep Materials and Methods in the main text, and select the required research-area classification at submission.

Its SKILL.md is about 1.6k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.

It sits in Research & Science, covering Deep research. The repository describes itself as: Journal-specific Claude Code/Codex skill packs covering mainstream journals — AER, QJE, Nature, Cell, 管理世界, 经济研究 & 200+ more — your fast track to getting published. ｜ 覆盖主流期刊的… The licence is MIT.

When your agent uses it

  • Choose the PNAS Nexus article type
  • Structure the main text
  • Select the required research-area classification at submission

Example prompts

  • “/pnasnexus-writing”

Workflow steps

3 steps, taken from the step headings in SKILL.md.

  1. choose the article type (this sets the budget)
  2. PNAS Nexus main-text order
  3. classification (required at submission)

What it can do on your machine

Read from SKILL.md and the folder at commit 932eb23. 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.

    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

Pnasnexus Writing loads about 1.6k tokens when it runs. Until then it costs about 79 tokens; SKILL.md has 749 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~79
When it runs · the whole SKILL.md, loaded when a task matches
~1.6k

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

Auto-check passed

The automated check found no risky patterns in SKILL.md.

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 brycewang-stanford/Awesome-Journal-Skills at commit 932eb23, republished under its MIT licence (© brycewang-stanford). 749 words, ~1,639 tokens.

Download SKILL.mdSave it as .claude/skills/pnasnexus-writing/SKILL.md (or your agent's skills folder).
name
pnasnexus-writing
description
Use to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered Report — keep Materials and Methods in the main text, and select the required research-area classification at submission.

Article Type, Structure & Length (pnasnexus-writing)

When to trigger

  • You have not chosen an article type, or the type doesn't match the content's length/ambition.
  • The manuscript structure is unclear or the Methods are being pushed out of the main text.
  • The paper is over the page budget.
  • You have not chosen a classification (research area + subcategory).
  • The Results read like a lab notebook instead of an argument.

Step 1: choose the article type (this sets the budget)

Article typeLength (confirm current guidelines)Use it for
Research Reportpreferred 6 pages, max 12 (a standard 6-pp article ≈ 4,000 words, 50 references, 4 figures/tables)the default for full original research
Brief Report≤3 pages (≈1,600 words, 15 refs)a short, complete, single-point study
Registered Report — Stage 1≤3 pages (≈1,600 words; intro + methods + analysis plan, pre-results)hypothesis-driven study reviewed before data collection
Registered Report — Stage 2preferred 6 pages / 4,000 words, max 12the completed study after Stage-1 in-principle acceptance
Perspective≤10 pagesa forward-looking, evidence-grounded opinion (may be unsolicited)
Review≤10 pagesa synthesis of a field (may be unsolicited)

The page limit counts the whole package — abstract, Significance Statement, main text, figure captions, and table legends all count toward it. There is no separately stated absolute word cap for the 12-page maximum; the "≈4,000 words" figure describes a 6-page article, not the 12-page ceiling. A "6,000-word cap" seen in third-party guides is 待核实 — the official limit is page-based.

Step 2: PNAS Nexus main-text order

A Research Report runs, in order:

  1. Title — declarative, specific, parseable by a non-specialist.
  2. Author list & affiliations.
  3. Significance Statement — 50–120 words (pnasnexus-significance), for Research Reports / Stage 2 Registered Reports.
  4. Abstract — ≤250-word single paragraph, no headings (pnasnexus-abstract).
  5. Introduction — the gap and why it matters broadly; end on what you found.
  6. Results — argument-ordered (below).
  7. Discussion — interpretation and broader, cross-field significance. (A combined "Results and Discussion" is acceptable where it reads better.)
  8. Materials and Methods — in the main text (see below).
  9. Acknowledgments, funding, data availability, references.

PNAS Nexus does not mandate a rigid IMRaD order beyond the in-text-Methods requirement — but the order above is the conventional, reviewer-friendly shape. Confirm any type-specific structure in current guidelines.

Materials and Methods stays in-text (a key requirement)

PNAS Nexus requires a Materials and Methods section in the main text — verbatim: "The main text must contain a materials and methods section which provides enough information for readers to follow the experiments in the paper. This information cannot be provided solely as supporting information." Provide enough method in the body to evaluate and reproduce the work; longer protocols and extended data go to Supporting Information (SI). Do not strip the main-text Methods to chase the page count — move detail to SI instead.

Show full SKILL.md (294 more words)Show less

Step 3: classification (required at submission)

PNAS Nexus asks authors to file the paper under one of three major research-area categories, each with subcategories:

  • Biological, Health, and Medical Sciences
  • Physical Sciences and Engineering
  • Social and Political Sciences

Pick the category (and subcategory) that matches the handling and review community you want, consistent with the venue/division call in pnasnexus-fit. Exact subcategory lists are 待核实 — choose from the live list in the submission system.

Length discipline

  • If you are over budget, move detail to SI (extended methods, supporting figures/tables, supplementary text) rather than deleting the main-text Methods.
  • Remember captions and legends count toward the page budget — tighten them.
  • Consider whether the work is really a Brief Report (≤3 pp) rather than an over-padded Research Report.

Structure as argument, not chronology

Order the Results by the logic of the claim, not the order experiments were run:

  1. Establish the phenomenon (the headline result).
  2. Rule out the obvious alternative explanations.
  3. Show the mechanism / generality.
  4. Demonstrate the broad, cross-field implication.

Each Results paragraph: claim sentence first, then evidence (figure callout + numbers), then inference.

Cross-references

  • Main figures/tables: "Fig. 1", "Table 1".
  • Supporting Information: "SI Appendix, Fig. S1 / Table S1" (confirm the exact SI labeling the journal uses); datasets as "Dataset S1".

Output format

【Article type】 Research Report / Brief Report / Registered Report (S1/S2) / Perspective / Review
【Budget】 within page limit for that type? (6 pp pref / 12 max for Research Report) — captions+legends counted?
【Order check】 Title / authors / Significance / Abstract / Intro / Results / Discussion / Materials and Methods / refs — gaps?
【Methods location】 in main text? yes (FIX if only in SI) — extended detail in SI?
【Classification】 research area (Bio-Health-Medical / Physical-Engineering / Social-Political) + subcategory chosen?
【Results order】 argument-ordered, claim-first? yes/no
【Items in main vs SI】 main: [...] / SI: [...]
【Next】 pnasnexus-figures

Anti-patterns

  • Do not pick the wrong article type — a single-point study padded into a Research Report wastes the budget; a sprawling study squeezed into a Brief Report loses rigor.
  • Do not delete the main-text Materials and Methods to fit the page count — move detail to SI.
  • Do not put Methods only in Supporting Information — the journal forbids it.
  • Do not omit the classification; it is required at submission.
  • Do not forget that captions, legends, abstract, and Significance Statement all count toward the page budget.

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

Files

Just SKILL.md in PNAS-Nexus-Skills/skills/pnasnexus-writing of brycewang-stanford/Awesome-Journal-Skills.

Open the folder on GitHubat commit 932eb23

Compare with similar skills

Pnasnexus Writing next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.

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Deep Researchsanjay3290/ai-skills4329 repos~683Automated safety check: NotesApache-2.0
Horizontal-Vertical Deep ResearchKKKKhazix/khazix-skills21k—~2.1kAutomated safety check: PassMIT
Academic Research PipelineImbad0202/academic-research-skills51k—~15kAutomated safety check: PassCustom licence

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Categories

Questions about Pnasnexus Writing

What does Pnasnexus Writing do?

A skill your agent uses to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered…. Pnasnexus Writing is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use to choose the PNAS Nexus article type, structure the main text, and hold the page-based length budget — Research Report / Brief Report / Perspective / Review / Registered Report — keep Materials and Methods in the main text, and select the required research-area classification at submission.

When should I use Pnasnexus Writing?

Pnasnexus Writing fits situations like: choose the PNAS Nexus article type; structure the main text; select the required research-area classification at submission.

How do I install Pnasnexus Writing in Claude Code?

Run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-writing -a claude-code`. Or copy the skill folder (PNAS-Nexus-Skills/skills/pnasnexus-writing in brycewang-stanford/Awesome-Journal-Skills) into .claude/skills/pnasnexus-writing in your project. Claude Code loads it when a task matches its description.

How do I install Pnasnexus Writing in Codex?

Run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-writing -a codex`. Or copy the skill folder (PNAS-Nexus-Skills/skills/pnasnexus-writing in brycewang-stanford/Awesome-Journal-Skills) into .agents/skills/pnasnexus-writing in your project. Codex loads it when a task matches its description.

Can I use Pnasnexus Writing in Cursor, Gemini CLI or GitHub Copilot?

Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-writing -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/pnasnexus-writing, .gemini/skills/pnasnexus-writing, .github/skills/pnasnexus-writing and .opencode/skills/pnasnexus-writing in your project.

What does Pnasnexus Writing need to run?

SKILL.md names no scripts, command-line tools or credentials: Pnasnexus Writing is instructions for the agent only.

Does Pnasnexus Writing access the network?

SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.

Is Pnasnexus Writing safe to install?

Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.

What licence does Pnasnexus Writing use?

Pnasnexus Writing is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Pnasnexus Writing use?

About 1.6k tokens (SKILL.md is roughly 6.6k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.

What are the alternatives to Pnasnexus Writing?

Skills that share tags, products or a category with Pnasnexus Writing: GitHub Deep Research (bytedance/deer-flow, 84k stars), Deep Research Workflow (TokenRhythm/opensquilla, 7.1k stars), Deep Research (sanjay3290/ai-skills, 432 stars) and Horizontal-Vertical Deep Research (KKKKhazix/khazix-skills, 21k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Pnasnexus Writing?

brycewang-stanford (a GitHub user) maintains it in brycewang-stanford/Awesome-Journal-Skills, which has 1,231 GitHub stars. The repository holds 2,387 skills in this directory. The repository was last updated on September 27, 2026.

Source: brycewang-stanford/Awesome-Journal-Skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.