Agent skill

Literature Discovery Pipeline

by Yuan1z0825 in Yuan1z0825/nature-skills

Runs a daily literature pipeline: multi-source search, six-dimension scoring, fine reading, formatted delivery to a chat channel and archival of the notes.

MITAuto-check passedResearch & Science

Install Literature Discovery Pipeline

skills CLI
$ npx skills add Yuan1z0825/nature-skills --skill nature-literature-pipeline -a claude-code

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

GitHub CLI
$ gh skill install Yuan1z0825/nature-skills nature-literature-pipeline --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/Yuan1z0825/nature-skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/nature-literature-pipeline .claude/skills/nature-literature-pipeline && 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
nature-literature-pipeline
GitHub stars
47k
Used in
2 other repos
Token cost
~1.2k tokens
SKILL.md length
339 words
Files
12 (incl. references)
Skills in repo
23
Repo updated
First seen
Licence
MIT

At a glance

Runs a daily literature pipeline: multi-source search, six-dimension scoring, fine reading, formatted delivery to a chat channel and archival of the notes.

  • Works in 5 steps: Keyword drift: Review keywords monthly —… → Score inflation: Subagents may inflate… → Duplicate creep: Classic papers will… → …
  • Getting a scored daily digest of new papers in a research area
  • SKILL.md covers What It Does, Quick Start, Architecture and Configuration, plus 4 more sections
  • Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md

What it does

The skill combines a configurable engine with a daily cron-driven application layer. The engine holds scoring, classification, note templates and gap analysis, while the application layer covers the daily pipeline, delivery formatting and archival. A daily trigger searches for candidate papers, scores them on six dimensions, reads the best ones closely, delivers a formatted push and archives the notes. Delivery works with Feishu, Telegram or other messaging platforms, and the archive is a local vault or wiki directory.

To start, you tell the agent your research area, keywords, delivery group and archive path, then ask for a daily push at a chosen time, for example 30 candidates with the top 5 delivered. Keywords in English and Chinese, scoring weights, classification tiers, delivery target and archive path are all configurable, with a template in templates/literature-push-template.md.

Built-in safeguards cap each score dimension and recalculate totals, remove duplicates by DOI, arXiv ID and OpenAlex ID, fall back from Semantic Scholar to OpenAlex, Crossref and arXiv when it is down, and keep the daily archive confined to the raw literature directory, so the wiki is never changed without your approval. Related skills cover ad-hoc search, citation export, Zotero and arXiv.

When your agent uses it

  • Getting a scored daily digest of new papers in a research area
  • Archiving reading notes into a local vault or wiki
  • Setting up a scheduled push of top papers to a Feishu or Telegram channel

Example prompts

  • “My research area is solid-state batteries; deliver a daily top-5 paper push to our Feishu group and archive notes to ./vault/raw.”
  • “Set up a daily literature push at 08:30 Beijing time with 30 candidates and the top 5 delivered.”
  • “Adjust the scoring weights so methods papers rank higher.”

Requirements

  • A scheduler for the daily cron job
  • A messaging channel such as Feishu or Telegram
  • Network access to Semantic Scholar, OpenAlex, Crossref and arXiv

Workflow steps

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

  1. Keyword drift: Review keywords monthly — research directions evolve
  2. Score inflation: Subagents may inflate scores; always validate arithmetic
  3. Duplicate creep: Classic papers will reappear; maintain a dedup index
  4. Wiki safety: Pipeline writes to raw/ only; wiki integration is manual
  5. Cron locality: Hermes cron is local, not cloud — machine must be running

What it can do on your machine

Read from SKILL.md and the folder at commit e605b35. 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

Literature Discovery Pipeline loads about 1.2k tokens when it runs, and up to ~6.3k if it reads all its reference files. Until then it costs about 74 tokens; SKILL.md has 339 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~74
When it runs · the whole SKILL.md, loaded when a task matches
~1.2k
With references · SKILL.md plus every file in references/, read only if the agent opens them
~6.3k

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 Yuan1z0825/nature-skills at commit e605b35, republished under its MIT licence (© Yuan1z0825). 339 words, ~1,163 tokens.

Download SKILL.mdSave it as .claude/skills/nature-literature-pipeline/SKILL.md (or your agent's skills folder). This skill also uses 11 other files; get the full folder from GitHub.
name
nature-literature-pipeline
description
Complete automated literature discovery pipeline: multi-source search → six-dimension scoring → fine reading → formatted delivery → archival. Combines a configurable engine with daily cron-driven application layer. Works with Feishu, Telegram, or any messaging platform.
license
MIT
metadata.author
Jiahao8595

Nature Literature Pipeline

A complete, production-tested automated literature pipeline. Not just "search for papers" — it's a structured engine that scores, classifies, reads, delivers, and archives research papers daily.

What It Does

Cron (daily trigger, e.g. 08:30)
  │
  ├─ ① SEARCH (30 candidates)
  │   arXiv / OpenAlex / Crossref / Semantic Scholar (auto-degradation)
  │
  ├─ ② COARSE FILTER (30 → 5)
  │   Six-dimension scoring: topic match × 35 + methodology × 20
  │   + journal quality × 15 + network relevance × 10
  │   + applied value × 10 + archival value × 10
  │
  ├─ ③ FINE READ (top 5)
  │   Abstract-level or full-text. Source level tagged:
  │   Full-text / Abstract only / Metadata only
  │
  ├─ ④ DELIVER
  │   Formatted digest to Feishu/Telegram/etc.
  │   🏅 rank | title | journal | ⭐ score | 💡 one-liner
  │   🔬 methods | 📊 key results | 🧭 commentary
  │
  └─ ⑤ ARCHIVE
      DOI/arXiv de-dup → classify → write notes → update index

Quick Start

After installing, tell your agent:

My research area is [X], keywords: [Y], deliver to [feishu group name], archive to [path]

The agent will configure keywords, delivery target, and archive path automatically.

Then set up a daily cron job:

Set up a daily literature push at 08:30 Beijing time, 30 candidates, top 5 delivered

Architecture

The skill is organized in two layers:

LayerPurposeFiles
EngineScoring, classification, note templates, gap analysisreferences/scoring-system.md, references/gap-analysis.md, references/note-template.md
ApplicationDaily cron pipeline, delivery formatting, archival workflowreferences/push-format.md, references/cron-setup.md, references/review-compilation-workflow.md

Configuration

All domain-specific content is configurable:

  • Keywords — your research keywords (English + Chinese)
  • Scoring weights — adjust the six dimensions for your field
  • Classification rules — define your own tier system (A-E or custom)
  • Delivery target — Feishu group, Telegram channel, email, etc.
  • Archive path — local vault/wiki directory

A config template is provided in templates/literature-push-template.md.

Built-in Safeguards

  • Score validation: Each dimension capped, total recalculated — no 11/10 allowed
  • Triple de-duplication: DOI / arXiv ID / OpenAlex ID
  • Graceful degradation: Semantic Scholar down → auto-switch to OpenAlex + Crossref + arXiv
  • Read-only archive: Daily pipeline writes to raw/ literature directory only; never modifies wiki/knowledge base without user approval
  • nature-academic-search — ad-hoc literature search (complementary; this skill adds structured daily automation)
  • nature-citation — CNS citation export (for importing pipeline discoveries into manuscripts)
  • zotero — library management (for long-term organization of pipeline outputs)
  • arxiv — arXiv API (used as a search source)

References

ReferencePurpose
references/scoring-system.mdSix-dimension scoring rubric with weights, caps, and evaluation logic
references/gap-analysis.mdMethodology for identifying research gaps through systematic literature survey
references/note-template.mdStandardized literature note format with YAML frontmatter
references/push-format.mdDaily digest message template with field guidelines and example
references/cron-setup.mdCron job creation, verification, and manual fallback procedures
references/review-compilation-workflow.mdEnd-to-end workflow for concentrated literature review writing

Pitfalls

  1. Keyword drift: Review keywords monthly — research directions evolve
  2. Score inflation: Subagents may inflate scores; always validate arithmetic
  3. Duplicate creep: Classic papers will reappear; maintain a dedup index
  4. Wiki safety: Pipeline writes to raw/ only; wiki integration is manual
  5. Cron locality: Hermes cron is local, not cloud — machine must be running

© Yuan1z0825, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file

Files

SKILL.md and 11 other files (references) in skills/nature-literature-pipeline of Yuan1z0825/nature-skills.

  • SKILL.md
  • README.md
  • README_EN.md
  • agents/openai.yaml
  • manifest.yaml
  • references/cron-setup.md
  • references/gap-analysis.md
  • references/note-template.md
  • references/push-format.md
  • references/review-compilation-workflow.md
  • references/scoring-system.md
  • templates/literature-push-template.md

Open the folder on GitHubat commit e605b35

Used in 2 other repositories

We found 2 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 2 other GitHub owners. This page covers the copy in Yuan1z0825/nature-skills, which our catalogue first saw on October 7, 2026.

Compare with similar skills

Literature Discovery 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.

Literature Discovery Pipeline compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Literature Discovery Pipeline this skillYuan1z0825/nature-skills47k2 repos~1.2kAutomated safety check: PassMIT
Larksnap FetchAmbroseX/larksnap291—~923Automated safety check: PassApache-2.0
Literature Reviewneflibata-feng/MyArxiv-Agent12620 repos~5.9kAutomated safety check: NotesMIT
Paper Research on arXivXiaomiMiMo/MiMo-Code14k—~1.5kAutomated safety check: PassMIT
Literature Review AgentAr9av/PaperOrchestra6791 repos~5.2kAutomated safety check: PassCustom licence
Paper AutoratersAr9av/PaperOrchestra6791 repos~1.6kAutomated safety check: PassCustom licence

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Questions about Literature Discovery Pipeline

What does Literature Discovery Pipeline do?

Runs a daily literature pipeline: multi-source search, six-dimension scoring, fine reading, formatted delivery to a chat channel and archival of the notes. The skill combines a configurable engine with a daily cron-driven application layer. The engine holds scoring, classification, note templates and gap analysis, while the application layer covers the daily pipeline, delivery formatting and archival.

When should I use Literature Discovery Pipeline?

Literature Discovery Pipeline fits situations like: getting a scored daily digest of new papers in a research area; archiving reading notes into a local vault or wiki; setting up a scheduled push of top papers to a Feishu or Telegram channel.

How do I install Literature Discovery Pipeline in Claude Code?

Run `npx skills add Yuan1z0825/nature-skills --skill nature-literature-pipeline -a claude-code`. Or copy the skill folder (skills/nature-literature-pipeline in Yuan1z0825/nature-skills) into .claude/skills/nature-literature-pipeline in your project. Claude Code loads it when a task matches its description.

How do I install Literature Discovery Pipeline in Codex?

Run `npx skills add Yuan1z0825/nature-skills --skill nature-literature-pipeline -a codex`. Or copy the skill folder (skills/nature-literature-pipeline in Yuan1z0825/nature-skills) into .agents/skills/nature-literature-pipeline in your project. Codex loads it when a task matches its description.

Can I use Literature Discovery 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 Yuan1z0825/nature-skills --skill nature-literature-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/nature-literature-pipeline, .gemini/skills/nature-literature-pipeline, .github/skills/nature-literature-pipeline and .opencode/skills/nature-literature-pipeline in your project.

What does Literature Discovery Pipeline need to run?

SKILL.md names no scripts, command-line tools or credentials: Literature Discovery Pipeline is instructions for the agent only. Our summary lists: A scheduler for the daily cron job; A messaging channel such as Feishu or Telegram; Network access to Semantic Scholar, OpenAlex, Crossref and arXiv.

Does Literature Discovery 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 Literature Discovery Pipeline 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 Literature Discovery Pipeline use?

Literature Discovery Pipeline is published under the MIT licence (declared in SKILL.md). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Literature Discovery Pipeline use?

About 1.2k tokens (SKILL.md is roughly 4.7k 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 5.2k tokens, read only when the agent opens those files.

What are the alternatives to Literature Discovery Pipeline?

Skills that share tags, products or a category with Literature Discovery Pipeline: Larksnap Fetch (AmbroseX/larksnap, 291 stars), Literature Review (neflibata-feng/MyArxiv-Agent, 126 stars), Paper Research on arXiv (XiaomiMiMo/MiMo-Code, 14k stars) and Literature Review Agent (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 Literature Discovery Pipeline?

Yuan1z0825 (a GitHub user) maintains it in Yuan1z0825/nature-skills, which has 47,222 GitHub stars. The repository holds 23 skills in this directory. The repository was last updated on October 11, 2026.

Source: Yuan1z0825/nature-skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.