Paper Orchestra
Ar9av/PaperOrchestra
Orchestrate the full PaperOrchestra (Song et al., 2026, arXiv:2604.05018) five-agent pipeline to turn unstructured research materials (idea, experimental log, LaTeX template, conference guidelines…
Full research pipeline: Workflow 1 (idea discovery) → implementation → Workflow 2 (auto review loop) → Workflow 3 (paper writing, optional).
Install Research Pipeline
The automated check flagged lines worth reading first. See the safety section below.
$ npx skills add AI4Scientist/nano-scientist --skill research-pipeline -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install AI4Scientist/nano-scientist research-pipeline --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/AI4Scientist/nano-scientist.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/research-pipeline .claude/skills/research-pipeline && 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 "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .claude/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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/AI4Scientist/nano-scientist/tree/main/skills/research-pipelineType 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 AI4Scientist/nano-scientist --skill research-pipeline -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install AI4Scientist/nano-scientist research-pipeline --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/AI4Scientist/nano-scientist.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/research-pipeline .agents/skills/research-pipeline && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .agents/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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 AI4Scientist/nano-scientist --skill research-pipeline -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install AI4Scientist/nano-scientist research-pipeline --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/AI4Scientist/nano-scientist.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/research-pipeline .cursor/skills/research-pipeline && 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 "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .cursor/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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/AI4Scientist/nano-scientist.git --path skills/research-pipeline--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 AI4Scientist/nano-scientist --skill research-pipeline -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install AI4Scientist/nano-scientist research-pipeline --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/AI4Scientist/nano-scientist.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/research-pipeline .gemini/skills/research-pipeline && 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 "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .gemini/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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 AI4Scientist/nano-scientist research-pipelineInstalls 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 AI4Scientist/nano-scientist --skill research-pipeline -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/AI4Scientist/nano-scientist.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/research-pipeline .github/skills/research-pipeline && 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 "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .github/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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 AI4Scientist/nano-scientist --skill research-pipeline -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install AI4Scientist/nano-scientist research-pipeline --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/AI4Scientist/nano-scientist.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/research-pipeline .opencode/skills/research-pipeline && 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 "research-pipeline" agent skill from https://github.com/AI4Scientist/nano-scientist/tree/main/skills/research-pipeline into .opencode/skills/research-pipeline/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "research-pipeline", 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
research-pipeline- GitHub stars
- 128
- Used in
- 2 other repos
- Token cost
- ~3k tokens
- SKILL.md length
- 1,210 words
- Files
- 1
- Skills in repo
- 74
- Repo updated
- First seen
- Licence
- None found
At a glance
Full research pipeline: Workflow 1 (idea discovery) → implementation → Workflow 2 (auto review loop) → Workflow 3 (paper writing, optional).
- Works in 6 steps: Idea Discovery (Workflow 1) → Implementation → Deploy Experiments (Workflow 2 — Part 1) → …
- End-to-end research
- SKILL.md covers Constants, Overview, Pipeline and Output Protocols, plus 2 more sections
- Calls codex
What it does
Research Pipeline is an agent skill from AI4Scientist/nano-scientist. Full research pipeline: Workflow 1 (idea discovery) → implementation → Workflow 2 (auto review loop) → Workflow 3 (paper writing, optional). Goes from a broad research direction all the way to a polished PDF. Use when user says "全流程", "full pipeline", "从找idea到投稿", "end-to-end research", or wants the complete autonomous research lifecycle.
Its SKILL.md is about 3k 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 Scientific writing. It works with arXiv. The repository describes itself as: An autonomous research agent that turns a topic into a peer-reviewed technical report.
When your agent uses it
- End-to-end research
- Wants the complete autonomous research lifecycle
Example prompts
- “full pipeline”
- “从找idea到投稿”
- “end-to-end research”
- “/research-pipeline”
Requirements
- Pre-approved tools (allowed-tools): Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent, Skill, mcp__codex__codex, mcp__codex__codex-reply
Workflow steps
6 steps, taken from the step headings in SKILL.md.
- Idea Discovery (Workflow 1)
- Implementation
- Deploy Experiments (Workflow 2 — Part 1)
- Auto Review Loop (Workflow 2 — Part 2)
- Research Summary & Writing Handoff
- Paper Writing (Workflow 3 — Optional)
What it can do on your machine
Read from SKILL.md and the folder at commit 7132192. 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(*)ReadWriteEditGrepGlobWebSearchWebFetchAgentSkill
…and 2 more on the same allowed-tools line.
From allowed-tools in the SKILL.md frontmatter.
Runs code
Shell commands in SKILL.md call:
codex
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
Research Pipeline loads about 3k tokens when it runs. Until then it costs about 90 tokens; SKILL.md has 1,210 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: warnings
The automated check found patterns that need a careful read before installing.
- WarningTells the agent its actions are pre-authorized / not to stop for confirmationSKILL.md:238
t << 'EOF' > file`) to write in chunks. Do NOT ask the user for permission — just do it silently. - NotePre-approves every shell command (allowed-tools: Bash)SKILL.md
allowed-tools: Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent, Skill, mcp__codex__codex, mcp__c
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
Without a licence we can't republish the file, so here is its outline and opening line. It has 1,210 words (~2,973 tokens).
“End-to-end autonomous research workflow for: $ARGUMENTS”
- name
- research-pipeline
- allowed-tools
- Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent, Skill, mcp__codex__codex, mcp__codex__codex-reply
- argument-hint
- research-direction
Files
Just SKILL.md in skills/research-pipeline of AI4Scientist/nano-scientist.
Open the folder on GitHubat commit 7132192
Used in 2 other repositories
We found 4 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 2 other GitHub owners. This page covers the copy in AI4Scientist/nano-scientist, which our catalogue first saw on October 7, 2026.
Compare with similar skills
Research Pipeline 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 |
|---|---|---|---|---|---|---|
| Research Pipeline this skillAI4Scientist/nano-scientist | 128 | 2 repos | ~3k | Automated safety check: Warn | None | |
| Paper OrchestraAr9av/PaperOrchestra | 679 | 1 repos | ~3.5k | Automated safety check: Pass | Custom licence | |
| Citation Verification GuideGalaxy-Dawn/claude-scholar | 5.7k | 2 repos | ~1.9k | Automated safety check: Pass | MIT | |
| Citation ManagementK-Dense-AI/claude-scientific-writer | 2.4k | 2 repos | ~3.9k | Automated safety check: Notes | MIT | |
| Agent Research AggregatorAr9av/PaperOrchestra | 679 | 1 repos | ~3.5k | Automated safety check: Pass | Custom licence | |
| Hugging Face Paper Publisherhuggingface/skills | 11k | 4 repos | ~4.2k | Automated safety check: Pass | Apache-2.0 |
Similar skills
Citation Verification Guide
Galaxy-Dawn/claude-scholar
Reference guidance for checking every citation in academic writing against canonical sources such as DOI, arXiv, CrossRef and Semantic Scholar, to catch fake or wrong references.
Citation Management
K-Dense-AI/claude-scientific-writer
Finds papers in OpenAlex, PubMed and Google Scholar, turns DOIs, PMIDs and arXiv IDs into clean BibTeX, and validates citations for a manuscript or thesis.
Agent Research Aggregator
Ar9av/PaperOrchestra
Pre-pipeline aggregator that scans AI agent cache directories (.claude, .cursor, .antigravity, .openclaw) or any user-specified directory for experimentation logs, extracts insights and numeric…
- Official
Hugging Face Paper Publisher
huggingface/skills
Indexes research papers on the Hugging Face Hub from arXiv, links them to models and datasets, claims authorship and generates markdown research articles from templates.
Scientific Writing
neflibata-feng/MyArxiv-Agent
Core skill for the deep research and writing tool. An agent skill from neflibata-feng/MyArxiv-Agent.
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Related
Works with
Categories
Questions about Research Pipeline
What does Research Pipeline do?
Full research pipeline: Workflow 1 (idea discovery) → implementation → Workflow 2 (auto review loop) → Workflow 3 (paper writing, optional). Research Pipeline is an agent skill from AI4Scientist/nano-scientist. Full research pipeline: Workflow 1 (idea discovery) → implementation → Workflow 2 (auto review loop) → Workflow 3 (paper writing, optional).
When should I use Research Pipeline?
Research Pipeline fits situations like: end-to-end research; wants the complete autonomous research lifecycle.
How do I install Research Pipeline in Claude Code?
Run `npx skills add AI4Scientist/nano-scientist --skill research-pipeline -a claude-code`. Or copy the skill folder (skills/research-pipeline in AI4Scientist/nano-scientist) into .claude/skills/research-pipeline in your project. Claude Code loads it when a task matches its description.
How do I install Research Pipeline in Codex?
Run `npx skills add AI4Scientist/nano-scientist --skill research-pipeline -a codex`. Or copy the skill folder (skills/research-pipeline in AI4Scientist/nano-scientist) into .agents/skills/research-pipeline in your project. Codex loads it when a task matches its description.
Can I use Research Pipeline 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 AI4Scientist/nano-scientist --skill research-pipeline -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/research-pipeline, .gemini/skills/research-pipeline, .github/skills/research-pipeline and .opencode/skills/research-pipeline in your project.
What does Research Pipeline need to run?
Going by SKILL.md and its folder, Research Pipeline needs the command-line tools its instructions call (codex). Its frontmatter pre-approves these tools: Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent, Skill, mcp__codex__codex, mcp__codex__codex-reply.
Does Research Pipeline 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 Research Pipeline safe to install?
Our automated static check of SKILL.md flagged 1 warning(s): tells the agent its actions are pre-authorized / not to stop for confirmation. Read the flagged lines before installing; the check is not a guarantee either way.
What licence does Research Pipeline use?
No licence was found for Research Pipeline or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
How many tokens does Research Pipeline use?
About 3k tokens (SKILL.md is roughly 12k 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 Research Pipeline?
Skills that share tags, products or a category with Research Pipeline: Paper Orchestra (Ar9av/PaperOrchestra, 679 stars), Citation Verification Guide (Galaxy-Dawn/claude-scholar, 5.7k stars), Citation Management (K-Dense-AI/claude-scientific-writer, 2.4k stars) and Agent Research Aggregator (Ar9av/PaperOrchestra, 679 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Research Pipeline?
AI4Scientist (a GitHub organization) maintains it in AI4Scientist/nano-scientist, which has 128 GitHub stars. The repository holds 74 skills in this directory. The repository was last updated on June 3, 2026.
Source: AI4Scientist/nano-scientist on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.