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Agent skill

Literature Note

by brycewang-stanford in brycewang-stanford/Auto-Empirical-Research-Skills

Creates a structured annotation note in references/ with sections for research question, data, findings, and relevance.

Custom licenceAuto-check: notesResearch & Science

Install Literature Note

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

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

GitHub CLI
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills literature-note --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/29-quarcs-lab-project20XXy/dot-claude/skills/literature-note .claude/skills/literature-note && 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
literature-note
GitHub stars
4.6k
Token cost
~568 tokens
SKILL.md length
190 words
Files
1
Skills in repo
383
Repo updated
First seen
Licence
Custom licence

At a glance

Creates a structured annotation note in references/ with sections for research question, data, findings, and relevance.

  • Works in 5 steps: Parse the argument → If a URL or DOI is provided, attempt to… → Create a Markdown file in references/… → …
  • Documenting a paper
  • SKILL.md covers Arguments, Steps and Error handling
  • Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md

What it does

Literature Note is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Creates a structured annotation note in references/ with sections for research question, data, findings, and relevance. Use when documenting a paper.

Its SKILL.md is about 570 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 Hypothesis generation. 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

  • Documenting a paper
  • Tasks that involve Hypothesis generation

Example prompts

  • “Use the literature-note skill to create a structured annotation note in references/ with sections for research question, data, findings, and relevance”
  • “/literature-note”

Requirements

  • Pre-approved tools (allowed-tools): Bash, Read, Write, Edit, Glob, Grep, WebSearch, WebFetch

Workflow steps

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

  1. Parse the argument
  2. If a URL or DOI is provided, attempt to fetch and read the paper to extract key information.
  3. Create a Markdown file in references/ named .md with this structure
  4. If information about the paper was retrieved (from the web or a PDF), pre-fill the sections with extracted content. Otherwise, leave the…
  5. Report the file path and remind the user to fill in any remaining placeholder sections.

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:

    • Bash
    • Read
    • Write
    • Edit
    • Glob
    • Grep
    • WebSearch
    • WebFetch

    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 markdown).

    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

Literature Note loads about 568 tokens when it runs. Until then it costs about 41 tokens; SKILL.md has 190 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~41
When it runs · the whole SKILL.md, loaded when a task matches
~568

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: Bash, Read, Write, Edit, Glob, Grep, WebSearch, WebFetch

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 190 words (~568 tokens).

“Create a structured annotation note for a paper in references/.”

— opening of SKILL.md by brycewang-stanford, Custom licence
name
literature-note
allowed-tools
Bash, Read, Write, Edit, Glob, Grep, WebSearch, WebFetch
argument-hint
<key, DOI, or description>

Read the full SKILL.md on GitHub

Files

Just SKILL.md in skills/29-quarcs-lab-project20XXy/dot-claude/skills/literature-note of brycewang-stanford/Auto-Empirical-Research-Skills.

Open the folder on GitHubat commit 9fa87d8

Compare with similar skills

Literature Note 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.

Literature Note compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Literature Note this skillbrycewang-stanford/Auto-Empirical-Research-Skills4.6k—~568Automated safety check: NotesCustom licence
Hypothesis Generationspacering-net/codeg3.9k14 repos~3.6kAutomated safety check: NotesMIT
Nature Paper CardYuan1z0825/nature-skills47k2 repos~2.1kAutomated safety check: PassApache-2.0
Hypothesis GenerationK-Dense-AI/claude-scientific-writer2.4k2 repos~3.9kAutomated safety check: PassMIT
Good QuestionRimagination/good-question3051 repos~4.3kAutomated safety check: PassMIT
High Stakes Analytics Decision Lablimingrui679-design/high-stakes-analytics-decision-lab1k—~2.2kAutomated safety check: PassMIT

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  • Hypothesis Generation

    spacering-net/codeg

    Structured hypothesis formulation from observations. An agent skill from spacering-net/codeg.

    3.9k GitHub starsUsed in 14 repos~3.6k tokens
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  • Nature Paper Card

    Yuan1z0825/nature-skills

    Builds a structured deep-reading card for one scientific paper, covering methods, how experiments support claims, limitations and research ideas, with a script to prepare the source.

    47k GitHub starsUsed in 2 repos~2.1k tokens
    Research & ScienceAuto-check passed

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    305 GitHub starsUsed in 1 repo~4.3k tokens
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Categories

Questions about Literature Note

What does Literature Note do?

Creates a structured annotation note in references/ with sections for research question, data, findings, and relevance. Literature Note is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Creates a structured annotation note in references/ with sections for research question, data, findings, and relevance.

When should I use Literature Note?

Literature Note fits situations like: documenting a paper; tasks that involve Hypothesis generation.

How do I install Literature Note in Claude Code?

Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill literature-note -a claude-code`. Or copy the skill folder (skills/29-quarcs-lab-project20XXy/dot-claude/skills/literature-note in brycewang-stanford/Auto-Empirical-Research-Skills) into .claude/skills/literature-note in your project. Claude Code loads it when a task matches its description.

How do I install Literature Note in Codex?

Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill literature-note -a codex`. Or copy the skill folder (skills/29-quarcs-lab-project20XXy/dot-claude/skills/literature-note in brycewang-stanford/Auto-Empirical-Research-Skills) into .agents/skills/literature-note in your project. Codex loads it when a task matches its description.

Can I use Literature Note 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 literature-note -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/literature-note, .gemini/skills/literature-note, .github/skills/literature-note and .opencode/skills/literature-note in your project.

What does Literature Note need to run?

SKILL.md names no scripts, command-line tools or credentials: Literature Note is instructions for the agent only. Its frontmatter pre-approves these tools: Bash, Read, Write, Edit, Glob, Grep, WebSearch, WebFetch.

Does Literature Note 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 Literature Note 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 Literature Note use?

Literature Note 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 Literature Note use?

About 568 tokens (SKILL.md is roughly 2.3k 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 Literature Note?

Skills that share tags, products or a category with Literature Note: Hypothesis Generation (spacering-net/codeg, 3.9k stars), Nature Paper Card (Yuan1z0825/nature-skills, 47k stars), Hypothesis Generation (K-Dense-AI/claude-scientific-writer, 2.4k stars) and Good Question (Rimagination/good-question, 305 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Literature Note?

brycewang-stanford (a GitHub user) maintains it in brycewang-stanford/Auto-Empirical-Research-Skills, which has 4,556 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.