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.
Conduct a systematic literature review AND develop theory and hypotheses in one integrated workflow.
Install Scholar Lit Review Hypothesis
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesis --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .claude/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .claude/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.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/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .claude/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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 install https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesisType 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.
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesis --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .agents/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .agents/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .agents/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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.
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesis --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .cursor/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .cursor/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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 https://github.com/joshzyj/open-scholar-skill.git --path .claude/skills/scholar-lit-review-hypothesis--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesis --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .gemini/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.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/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .gemini/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesisInstalls 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).
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .github/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .github/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.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/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .github/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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.
$ npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install joshzyj/open-scholar-skill scholar-lit-review-hypothesis --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/joshzyj/open-scholar-skill.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/.claude/skills/scholar-lit-review-hypothesis .opencode/skills/scholar-lit-review-hypothesis && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "scholar-lit-review-hypothesis" agent skill from https://github.com/joshzyj/open-scholar-skill/tree/main/.claude/skills/scholar-lit-review-hypothesis into .opencode/skills/scholar-lit-review-hypothesis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "scholar-lit-review-hypothesis", 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
scholar-lit-review-hypothesis- GitHub stars
- 168
- Token cost
- ~15k tokens
- SKILL.md length
- 4,688 words
- Files
- 5 (incl. references)
- Skills in repo
- 30
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
Conduct a systematic literature review AND develop theory and hypotheses in one integrated workflow.
- Works in 5 steps: LITERATURE SEARCH → SYNTHESIS — WHAT WE KNOW AND DON'T KNOW → FRAMEWORK SELECTION AND MECHANISM → …
- The user wants to map existing knowledge
- SKILL.md covers Core Logic, Arguments, PHASE 1: LITERATURE SEARCH and PHASE 2: SYNTHESIS — WHAT WE…, plus 6 more sections
- Calls bash, pdftotext and sqlite3; needs PDF_KEY
What it does
Scholar Lit Review Hypothesis is an agent skill from joshzyj/open-scholar-skill. Conduct a systematic literature review AND develop theory and hypotheses in one integrated workflow. Use when the user wants to map existing knowledge, identify gaps, select theoretical frameworks that address those gaps, specify mechanisms, and derive testable hypotheses — producing a publication-ready Literature Review and Theory section. Works best after /scholar-idea. Replaces running /scholar-lit-review and /scholar-hypothesis separately.
Its SKILL.md is about 15k tokens, which your agent loads only when the skill is triggered. The skill folder holds 5 other files, including reference files (for example `references/gap-to-hypothesis.md`, `references/search-strategies.md` and `references/synthesis-guide.md`).
It sits in Research & Science, covering Literature review. The repository describes itself as: Open scholar skill, a claude code plugin, for academic research.
When your agent uses it
- The user wants to map existing knowledge
- Select theoretical frameworks that address those gaps
- Specify mechanisms
- Derive testable hypotheses — producing a publication-ready Literature Review and Theory section
Example prompts
- “/scholar-lit-review-hypothesis”
Workflow steps
5 steps, taken from the step headings in SKILL.md.
- LITERATURE SEARCH
- SYNTHESIS — WHAT WE KNOW AND DON'T KNOW
- FRAMEWORK SELECTION AND MECHANISM
- HYPOTHESIS DERIVATION
- WRITE AND SAVE
What it can do on your machine
Read from SKILL.md and the folder at commit 6e5ac8e. 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
Shell commands in SKILL.md call:
bashpdftotextsqlite3python3
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 these keys or tokens, usually read from environment variables:
PDF_KEY
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Scholar Lit Review Hypothesis loads about 15k tokens when it runs, and up to ~25k if it reads all its reference files. Until then it costs about 119 tokens; SKILL.md has 4,688 words of instructions outside code blocks.
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.
- NoteMentions a .env fileSKILL.md:187
R/zotero.sqlite (auto-detected or set in .env; copy to /tmp; .bak fallback)
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 4,688 words (~14,629 tokens).
“You are an expert sociologist conducting a rigorous, publication-quality literature review that flows directly into theoretical framework development and hypothesis derivation. Your output should meet the standards of ASR, AJS, Demography, Nature Human Behaviour, and Science Advances.”
- name
- scholar-lit-review-hypothesis
- tools
- WebSearch, WebFetch, Read, Bash, Write
- argument-hint
- [RQ or topic] [optional: target journal, population, method preferences]
- user-invocable
- true
Files
SKILL.md and 4 other files (references) in .claude/skills/scholar-lit-review-hypothesis of joshzyj/open-scholar-skill.
- SKILL.md
- references/gap-to-hypothesis.md
- references/search-strategies.md
- references/synthesis-guide.md
- references/theory-frameworks.md
Open the folder on GitHubat commit 6e5ac8e
Compare with similar skills
Scholar Lit Review Hypothesis 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.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Scholar Lit Review Hypothesis this skilljoshzyj/open-scholar-skill | 168 | — | ~15k | Automated safety check: Notes | Custom licence | |
| Nature Paper CardYuan1z0825/nature-skills | 47k | 2 repos | ~2.1k | Automated safety check: Pass | Apache-2.0 | |
| Systematic Review ScreenerImbad0202/academic-research-skills | 51k | — | ~8.4k | Automated safety check: Pass | Custom licence | |
| Literature Reviewneflibata-feng/MyArxiv-Agent | 126 | 20 repos | ~5.9k | Automated safety check: Notes | MIT | |
| Preprint Search on bioRxivLigphiDonk/Oh-my--paper | 739 | 12 repos | ~3.7k | Automated safety check: Pass | MIT | |
| Academic Paper Writing PipelineImbad0202/academic-research-skills | 51k | — | ~16k | Automated safety check: Pass | Custom licence |
Similar skills
Systematic Review Screener
Imbad0202/academic-research-skills
Screens records for systematic, scoping and rapid reviews against fixed eligibility rules, using two blinded AI reviewers and a third adjudicator, with traceable PRISMA counts.
Literature Review
neflibata-feng/MyArxiv-Agent
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.).
Preprint Search on bioRxiv
LigphiDonk/Oh-my--paper
Searches bioRxiv life sciences preprints by keyword, author, date range or category with a Python script, returning JSON metadata and optional PDF downloads.
Academic Paper Writing Pipeline
Imbad0202/academic-research-skills
Runs a 12-agent pipeline that plans, drafts, cites, reviews and formats academic papers, with modes for revision, rebuttals, abstracts and citation checks.
Deep Research Workflow
TokenRhythm/opensquilla
Runs multi-round research in three stages with a persisted state file, evidence tracking and a long-form report with per-claim citations.
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Related
Categories
Questions about Scholar Lit Review Hypothesis
What does Scholar Lit Review Hypothesis do?
Conduct a systematic literature review AND develop theory and hypotheses in one integrated workflow. Scholar Lit Review Hypothesis is an agent skill from joshzyj/open-scholar-skill. Conduct a systematic literature review AND develop theory and hypotheses in one integrated workflow.
When should I use Scholar Lit Review Hypothesis?
Scholar Lit Review Hypothesis fits situations like: the user wants to map existing knowledge; select theoretical frameworks that address those gaps; specify mechanisms; derive testable hypotheses — producing a publication-ready Literature Review and Theory section.
How do I install Scholar Lit Review Hypothesis in Claude Code?
Run `npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a claude-code`. Or copy the skill folder (.claude/skills/scholar-lit-review-hypothesis in joshzyj/open-scholar-skill) into .claude/skills/scholar-lit-review-hypothesis in your project. Claude Code loads it when a task matches its description.
How do I install Scholar Lit Review Hypothesis in Codex?
Run `npx skills add joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a codex`. Or copy the skill folder (.claude/skills/scholar-lit-review-hypothesis in joshzyj/open-scholar-skill) into .agents/skills/scholar-lit-review-hypothesis in your project. Codex loads it when a task matches its description.
Can I use Scholar Lit Review Hypothesis 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 joshzyj/open-scholar-skill --skill scholar-lit-review-hypothesis -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/scholar-lit-review-hypothesis, .gemini/skills/scholar-lit-review-hypothesis, .github/skills/scholar-lit-review-hypothesis and .opencode/skills/scholar-lit-review-hypothesis in your project.
What does Scholar Lit Review Hypothesis need to run?
Going by SKILL.md and its folder, Scholar Lit Review Hypothesis needs the command-line tools its instructions call (bash, pdftotext, sqlite3 and python3) and credentials named PDF_KEY.
Does Scholar Lit Review Hypothesis 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 Scholar Lit Review Hypothesis safe to install?
Our automated static check of SKILL.md found notes only (mentions a .env file), nothing it rates as a warning. It is not a guarantee. Review the folder before installing.
What licence does Scholar Lit Review Hypothesis use?
Scholar Lit Review Hypothesis 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 Scholar Lit Review Hypothesis use?
About 15k tokens (SKILL.md is roughly 59k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 10k tokens, read only when the agent opens those files.
What are the alternatives to Scholar Lit Review Hypothesis?
Skills that share tags, products or a category with Scholar Lit Review Hypothesis: Nature Paper Card (Yuan1z0825/nature-skills, 47k stars), Systematic Review Screener (Imbad0202/academic-research-skills, 51k stars), Literature Review (neflibata-feng/MyArxiv-Agent, 126 stars) and Preprint Search on bioRxiv (LigphiDonk/Oh-my--paper, 739 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Scholar Lit Review Hypothesis?
joshzyj (a GitHub user) maintains it in joshzyj/open-scholar-skill, which has 168 GitHub stars. The repository holds 30 skills in this directory. The repository was last updated on September 18, 2026.
Source: joshzyj/open-scholar-skill on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.