Agent skill

Pnasnexus Statistics

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

Install Pnasnexus Statistics

skills CLI

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

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

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics --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-statistics .claude/skills/pnasnexus-statistics && 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/

Paste into Claude Code

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .claude/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

$skill-installer

$skill-installer install https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics

Type this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.

skills CLI

$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-statistics -a codex

Project install goes to .agents/skills/; add -g for ~/.codex/skills/.

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics --agent codex

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

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

Use ~/.agents/skills/ instead of .agents/skills for a personal install.

Codex skills documentation · loads skills from .agents/skills/

Paste into Codex

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .agents/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

skills CLI

$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-statistics -a cursor

Project install goes to .agents/skills/; add -g for ~/.cursor/skills/.

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics --agent cursor

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

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

Use ~/.cursor/skills/ instead of .cursor/skills for a personal install.

Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/

Paste into Cursor

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .cursor/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

gemini skills install

$ gemini skills install https://github.com/brycewang-stanford/Awesome-Journal-Skills.git --path PNAS-Nexus-Skills/skills/pnasnexus-statistics

--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.

skills CLI

$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-statistics -a gemini-cli

Project install goes to .agents/skills/; add -g for ~/.gemini/skills/.

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics --agent gemini-cli

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

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

Use ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.

Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/

Paste into Gemini CLI

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .gemini/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics

Installs for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).

skills CLI

$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-statistics -a github-copilot

Project install goes to .agents/skills/; add -g for ~/.copilot/skills/.

Manual copy

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

Use ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.

GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/

Paste into GitHub Copilot

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .github/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

skills CLI

$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill pnasnexus-statistics -a opencode

OpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.

GitHub CLI

$ gh skill install brycewang-stanford/Awesome-Journal-Skills pnasnexus-statistics --agent opencode

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

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

Use ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.

OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/

Paste into OpenCode

Install the "pnasnexus-statistics" agent skill from https://github.com/brycewang-stanford/Awesome-Journal-Skills/tree/main/PNAS-Nexus-Skills/skills/pnasnexus-statistics into .opencode/skills/pnasnexus-statistics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "pnasnexus-statistics", then confirm the skill loads.

OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

Facts

Skill name: pnasnexus-statistics
GitHub stars: 1.2k
Token cost: ~1.4k tokens
SKILL.md length: 579 words
Files: 1
Skills in repo: 2,387
Repo updated: Sep 27, 2026
First seen: Oct 7, 2026
Licence: MIT

At a glance

Enforce PNAS Nexuss statistics and reproducibility reporting — n and replication
SKILL.md covers When to trigger, The reporting backbone (every…, Replication and design and Registered Reports: a PNAS…, plus 5 more sections
Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md
Test choice and assumptions

What it does

Pnasnexus Statistics is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use to enforce PNAS Nexus's statistics and reproducibility reporting — n and replication, test choice and assumptions, effect sizes with uncertainty, multiple-comparison control, randomization/blinding, sample-size justification, and reproducible code. Also covers whether a Registered Report (Stage 1/2) is the right route for confirmatory work.

Its SKILL.md is about 1.4k 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 Data & Analytics, covering Statistics, Experimental design and Reproducible 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

Enforce PNAS Nexuss statistics and reproducibility reporting — n and replication
Test choice and assumptions
Effect sizes with uncertainty
Multiple-comparison control

Example prompts

“/pnasnexus-statistics”

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 Statistics loads about 1.4k tokens when it runs. Until then it costs about 92 tokens; SKILL.md has 579 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it: ~92
When it runs · the whole SKILL.md, loaded when a task matches: ~1.4k

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). 579 words, ~1,393 tokens.

Download SKILL.mdSave it as .claude/skills/pnasnexus-statistics/SKILL.md (or your agent's skills folder).

name: pnasnexus-statistics
description: Use to enforce PNAS Nexus's statistics and reproducibility reporting — n and replication, test choice and assumptions, effect sizes with uncertainty, multiple-comparison control, randomization/blinding, sample-size justification, and reproducible code. Also covers whether a Registered Report (Stage 1/2) is the right route for confirmatory work.

Statistics & Reproducibility (pnasnexus-statistics)

When to trigger

Results report P values but not effect sizes or n.
"Three independent experiments" is claimed but replication is unclear.
Multiple comparisons are run with no correction.
A reviewer is likely to ask "were analyses pre-specified?" and there's no answer.
The analysis is not reproducible from the deposited code (pnasnexus-data).
The study is confirmatory and you want reviews before collecting data — consider a Registered Report.

The reporting backbone (every quantitative claim)

Each claim needs: effect size + uncertainty + n + test + what n means.

n stated, with the unit of replication (biological vs technical replicates; cells vs animals vs subjects vs experiments).
Effect size with 95% CI (preferred) or SD/SEM clearly labeled — not P alone.
Exact P values (e.g., P = 0.013), not "P < 0.05", unless extremely small.
Test named and justified (assumptions checked: normality, variance homogeneity, independence).
Multiple comparisons corrected (Bonferroni/Holm/FDR) when many tests are run.

Replication and design

Distinguish biological replication (independent samples) from technical replication (re-measurement). The former is what counts.
State how the sample size was chosen (power analysis or explicit rationale), not post-hoc.
Report randomization of subjects/treatments and blinding of measurement/analysis where applicable, or state why not.
Report inclusion/exclusion criteria and any excluded data, with reasons, decided in advance.

Registered Reports: a PNAS Nexus route for confirmatory work

PNAS Nexus offers Registered Reports, where the study design and analysis plan are peer-reviewed before data are collected (Stage 1, ≤3 pp), and — on in-principle acceptance — the completed study (Stage 2) is published largely regardless of whether the hypothesis was supported, provided the pre-registered plan was followed.

Consider a Registered Report when:

The study is confirmatory / hypothesis-testing and you want to guard against p-hacking and publication bias.
A null or mixed result would still be informative to the field.
The design benefits from reviewer input before the expense of data collection.

In the Stage 2 manuscript, separate pre-registered (confirmatory) analyses from post-hoc (exploratory) ones explicitly, and report deviations from the Stage 1 plan.

Show full SKILL.md (251 more words)Show less

Discipline-specific notes across PNAS Nexus divisions

PNAS Nexus spans biological/health/medical, physical sciences & engineering, and social & political sciences, so match the rigor conventions of your division:

Biological / health / medical: replication unit, ARRIVE-style animal reporting, antibody/reagent validation, clinical-study reporting standards (CONSORT/STROBE) where applicable.
Social / political / behavioral: pre-registration is increasingly expected; report power, sampling frame, and deviations from the plan.
Physical / engineering / computational: report uncertainties, error propagation, and numerical reproducibility (seeds, solver settings).

Avoid the classic reviewer kills

Pseudoreplication: treating technical replicates / cells from one animal as independent n.
HARKing / p-hacking: presenting exploratory findings as confirmatory. Label exploratory work as such (or run a Registered Report).
"Representative" images with no quantification across replicates.
Bar chart + SEM masking a tiny, variable n.
Comparing two effects by their significance ("significant here, not there") instead of testing the difference.

Reproducibility package

Analysis code in a public repository, archived for a DOI (see pnasnexus-data), with a README and environment/versions.
Deterministic where possible; report random seeds for simulations/ML.
Because PNAS Nexus mandates that code and data be available in a public repository upon publication, build the reproducibility package as you go — it is not optional here.

Output format

【Per-claim backbone】 effect+CI / n / unit-of-n / test / assumptions → list gaps
【Replication】 biological vs technical clear? yes/no
【Sample-size rationale】 power/justification present? yes/no
【Randomization & blinding】 reported / N/A-justified / missing
【Multiplicity】 corrected? method
【Registered Report?】 confirmatory work → Stage 1/2 considered? yes/no/N-A
【Division-specific rigor】 (Bio-Health-Medical / Physical-Engineering / Social-Political) conventions met? yes/no
【Reproducibility】 code + versions + seeds in a public repo (mandatory)? yes/no
【Next】 pnasnexus-data

Anti-patterns

Do not report P without effect size and n.
Do not count technical replicates as independent observations.
Do not infer "no effect" from a non-significant test on an underpowered sample.
Do not present post-hoc subgroup findings as if pre-specified — use a Registered Report for true confirmatory tests.
Do not defer the reproducibility package — public data/code is mandatory at PNAS Nexus.

Files

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

Open the folder on GitHubat commit 932eb23

Compare with similar skills

Pnasnexus Statistics 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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Sci Statisticsfranklee16/academic-research-skills	223	1 repos	~862	Automated safety check: Pass	None	22 days ago
Experiment AgentImbad0202/experiment-agent	199	—	~3.1k	Automated safety check: Pass	CC-BY-NC-4.0	16 days ago
Tooluniverse Gwas Study Explorerwu-yc/LabClaw	1.1k	2 repos	~2.9k	Automated safety check: Pass	None	6 mo ago
Jbes Replication And Data Policyfranklee16/academic-research-skills	223	1 repos	~1k	Automated safety check: Pass	None	22 days ago

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Questions about Pnasnexus Statistics

What does Pnasnexus Statistics do?

A skill your agent uses to enforce PNAS Nexus's statistics and reproducibility reporting — n and replication, test choice and assumptions, effect sizes with uncertainty, multiple-comparison control…. Pnasnexus Statistics is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use to enforce PNAS Nexus's statistics and reproducibility reporting — n and replication, test choice and assumptions, effect sizes with uncertainty, multiple-comparison control, randomization/blinding, sample-size justification, and reproducible code.

When should I use Pnasnexus Statistics?

Pnasnexus Statistics fits situations like: enforce PNAS Nexuss statistics and reproducibility reporting — n and replication; test choice and assumptions; effect sizes with uncertainty; multiple-comparison control.

How do I install Pnasnexus Statistics in Claude Code?

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

How do I install Pnasnexus Statistics in Codex?

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

Can I use Pnasnexus Statistics 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-statistics -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-statistics, .gemini/skills/pnasnexus-statistics, .github/skills/pnasnexus-statistics and .opencode/skills/pnasnexus-statistics in your project.

What does Pnasnexus Statistics need to run?

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

Does Pnasnexus Statistics 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 Statistics 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 Statistics use?

Pnasnexus Statistics 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 Statistics use?

About 1.4k tokens (SKILL.md is roughly 5.6k 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 Statistics?

Skills that share tags, products or a category with Pnasnexus Statistics: Pnas Statistics (franklee16/academic-research-skills, 223 stars), Sci Statistics (franklee16/academic-research-skills, 223 stars), Experiment Agent (Imbad0202/experiment-agent, 199 stars) and Tooluniverse Gwas Study Explorer (wu-yc/LabClaw, 1.1k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Pnasnexus Statistics?

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.

Install Pnasnexus Statistics

Facts

At a glance

What it does

When your agent uses it

Example prompts

What it can do on your machine

Tool permissions

Runs code

Network

Credentials

Context cost

Safety

SKILL.md

Statistics & Reproducibility (pnasnexus-statistics)

When to trigger

The reporting backbone (every quantitative claim)

Replication and design

Registered Reports: a PNAS Nexus route for confirmatory work

Discipline-specific notes across PNAS Nexus divisions

Avoid the classic reviewer kills

Reproducibility package

Output format

Anti-patterns

Files

Compare with similar skills

Similar skills

More from brycewang-stanford/Awesome-Journal-Skills

Related

Questions about Pnasnexus Statistics