Deep consistency audit of the entire repository infrastructure.

Custom licenceAuto-check: notesDevelopment

Install Deep Audit

skills CLI
$ npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill deep-audit -a claude-code

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

GitHub CLI
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills deep-audit --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/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/12-pedrohcgs-claude-code-my-workflow/dot-claude/skills/deep-audit .claude/skills/deep-audit && 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
deep-audit
GitHub stars
4.5k
Token cost
~1.4k tokens
SKILL.md length
583 words
Files
1
Skills in repo
383
Repo updated
First seen
Licence
Custom licence

At a glance

Deep consistency audit of the entire repository infrastructure.

  • Works in 5 steps: Launch 4 Parallel Audit Agents → Triage Findings → Fix All Issues → …
  • : after making broad changes
  • SKILL.md covers When to Use, Workflow, Key Lessons from Past Audits and Output Format
  • Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md

What it does

Deep Audit is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Deep consistency audit of the entire repository infrastructure. Launches 4 parallel specialist agents to find factual errors, code bugs, count mismatches, and cross-document inconsistencies. Then fixes all issues and loops until clean. Use when: after making broad changes, before releases, or when user says "audit", "find inconsistencies", "check everything".

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 Development. The repository describes itself as: 🔬 A curated collection of 23,000+ agent skills for empirical research across 8 social science disciplines. | 精选 23,000+ AI Agent 技能库,覆盖8大社会科学学科的实证研究。CoPaper.AI…

When your agent uses it

  • : after making broad changes
  • Before releases
  • User says audit
  • Find inconsistencies

Example prompts

  • “find inconsistencies”
  • “check everything”
  • “/deep-audit”

Requirements

  • Python 3
  • Pre-approved tools (allowed-tools): Read, Write, Edit, Bash, Glob, Grep, Task

Workflow steps

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

  1. Launch 4 Parallel Audit Agents
  2. Triage Findings
  3. Fix All Issues
  4. Re-render if Guide Changed
  5. Loop or Declare Clean

What it can do on your machine

Read from SKILL.md and the folder at commit 9fa87d8. It shows what the files ask for, not the result of running them.

  • Tool permissions

    Pre-approves these tools, so the agent can use them without asking each time:

    • Read
    • Write
    • Edit
    • Bash
    • Glob
    • Grep
    • Task

    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 bash).

    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

Deep Audit loads about 1.4k tokens when it runs. Until then it costs about 93 tokens; SKILL.md has 583 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~93
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: notes

The automated check noted patterns worth knowing about, such as sudo or a known installer.

  • NotePre-approves every shell command (allowed-tools: Bash)SKILL.md
    allowed-tools: Read, Write, Edit, Bash, Glob, Grep, Task

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

Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 583 words (~1,413 tokens).

“Run a comprehensive consistency audit across the entire repository, fix all issues found, and loop until clean.”

— opening of SKILL.md by brycewang-stanford, Custom licence
name
deep-audit
allowed-tools
Read, Write, Edit, Bash, Glob, Grep, Task
author
Claude Code Academic Workflow
version
1.0.0

Read the full SKILL.md on GitHub

Files

Just SKILL.md in skills/12-pedrohcgs-claude-code-my-workflow/dot-claude/skills/deep-audit of brycewang-stanford/Auto-Empirical-Research-Skills.

Open the folder on GitHubat commit 9fa87d8

Compare with similar skills

Deep Audit 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.

Deep Audit compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Deep Audit this skillbrycewang-stanford/Auto-Empirical-Research-Skills4.5k—~1.4kAutomated safety check: NotesCustom licence
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Finishing a Development Branchobra/superpowers297k5 repos~1.9kAutomated safety check: PassMIT
Typescript Advanced Typesrolling-scopes/rsschool-app10k25 repos~4.2kAutomated safety check: PassMPL-2.0
PR Babysitteropeninterpreter/openinterpreter69k3 repos~4.2kAutomated safety check: PassApache-2.0
Code Review ChecklistshareAI-lab/learn-claude-code78k5 repos~1.1kAutomated safety check: PassMIT

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Categories

Questions about Deep Audit

What does Deep Audit do?

Deep consistency audit of the entire repository infrastructure. Deep Audit is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Deep consistency audit of the entire repository infrastructure.

When should I use Deep Audit?

Deep Audit fits situations like: : after making broad changes; before releases; user says audit; find inconsistencies.

How do I install Deep Audit in Claude Code?

Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill deep-audit -a claude-code`. Or copy the skill folder (skills/12-pedrohcgs-claude-code-my-workflow/dot-claude/skills/deep-audit in brycewang-stanford/Auto-Empirical-Research-Skills) into .claude/skills/deep-audit in your project. Claude Code loads it when a task matches its description.

How do I install Deep Audit in Codex?

Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill deep-audit -a codex`. Or copy the skill folder (skills/12-pedrohcgs-claude-code-my-workflow/dot-claude/skills/deep-audit in brycewang-stanford/Auto-Empirical-Research-Skills) into .agents/skills/deep-audit in your project. Codex loads it when a task matches its description.

Can I use Deep Audit 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/Auto-Empirical-Research-Skills --skill deep-audit -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/deep-audit, .gemini/skills/deep-audit, .github/skills/deep-audit and .opencode/skills/deep-audit in your project.

What does Deep Audit need to run?

SKILL.md names no scripts, command-line tools or credentials: Deep Audit is instructions for the agent only. Our summary lists: Python 3. Its frontmatter pre-approves these tools: Read, Write, Edit, Bash, Glob, Grep, Task.

Does Deep Audit 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 Deep Audit safe to install?

Our automated static check of SKILL.md found notes only (pre-approves every shell command (allowed-tools: bash)), nothing it rates as a warning. It is not a guarantee. Review the folder before installing.

What licence does Deep Audit use?

Deep Audit has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.

How many tokens does Deep Audit use?

About 1.4k tokens (SKILL.md is roughly 5.7k 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 Deep Audit?

Skills that share tags, products or a category with Deep Audit: Vercel Composition Patterns (supabase/supabase, 111k stars), Finishing a Development Branch (obra/superpowers, 297k stars), Typescript Advanced Types (rolling-scopes/rsschool-app, 10k stars) and PR Babysitter (openinterpreter/openinterpreter, 69k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Deep Audit?

brycewang-stanford (a GitHub user) maintains it in brycewang-stanford/Auto-Empirical-Research-Skills, which has 4,542 GitHub stars. The repository holds 383 skills in this directory. The repository was last updated on October 5, 2026.

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