paper-digest

paper-digest is a skill for Claude Code, Codex from drpwchen/paper-review-and-digest. It costs 148 tokens per session (2,652 once invoked), scanned A, original, MIT.

A skill that turns one research paper into a teaching-style digest for quickly understanding its content. bioRxiv-style research papers are scientific articles, and a digest summarizes and reorganizes the paper rather than judging whether its methods are reliable.

In plain words
What is it for?
Use it to organize a paper’s content into notes, extract learning points, create review questions, and route the result into the configured knowledge or review system.
Why use it?
It reduces the time needed to absorb a paper’s main ideas and full structure. It can also create self-test cards so the reader can review what they learned.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one. Also seen: reads .claude/ paths; mentions subagents.

Good fit Use it to organize a paper’s content into notes, extract learning points, create review questions, and route the result into the configured knowledge or review system.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/drpwchen/paper-review-and-digest/paper-digest
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add drpwchen/paper-review-and-digest --skill paper-digest
Clone the repo
git clone --depth 1 https://github.com/drpwchen/paper-review-and-digest

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for paper-digest

README.md
[![agentmods](https://agentmods.dev/badge/skills/drpwchen/paper-review-and-digest/paper-digest/github.svg)](https://agentmods.dev/skills/drpwchen/paper-review-and-digest/paper-digest)
Your own site
<a href="https://agentmods.dev/skills/drpwchen/paper-review-and-digest/paper-digest"><img src="https://agentmods.dev/badge/skills/drpwchen/paper-review-and-digest/paper-digest/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for paper-digest

Your own site · 80×15
<a href="https://agentmods.dev/skills/drpwchen/paper-review-and-digest/paper-digest"><img src="https://agentmods.dev/badge/skills/drpwchen/paper-review-and-digest/paper-digest.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 148 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 2,652 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe. Third-party audits
  • NVIDIA SkillSpector pass 7 Sept 2026
How audits are shown
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00148 $0.02652
Opus 5.5 $0.00059 $0.01061
Sonnet 5.5 $0.00030 $0.00530
Haiku 4.5 $0.00015 $0.00265

Measured 2mo ago against content hash 3feac860ea24, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

paper-digest scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 2mo ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

paper-digest/SKILL.md · 158 lines

How it starts

The opening of the file, as written. The whole thing — 158 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Paper Digest — 單篇論文內容整理(快速吸收)

What this is (and is NOT)

/paper-review answers 「這篇可不可信、做得好不好」. /paper-digest answers 「這篇講了什麼、我怎麼最快把全部內容吸收進腦袋」. It is for papers read as content / knowledge material(綜論、技術介紹、機制整理、指引). The two are independent and can both run on one paper (combined note). A digest additionally feeds the 複習迴圈: it generates self-test cards that go to the review web page so learning doesn't end at "note written".

Tone, language, and clinical framing are driven by ${persona} (see Configuration). Follow vault note rules (Tab indent, > [!type] callouts, ${persona.highlight_style} for cut-offs, no code blocks for clinical content).

Configuration (read FIRST, every run)

Read config.yaml in the sibling paper-review/ skill directory (shared config; copy config.example.yaml → config.yaml on first setup). Keys this skill uses: ${vault.papers_dir}, ${vault.medicine_dir}, ${vault.inbox_note}, ${vault.daily_section}, ${review_site.url}, ${review_site.push_script}, ${persona}. Substitute every ${...} with the config value; a blank value means "skip that route" (e.g. empty review_site.push_script → no card push).

Input

DOI / PMID / title / PDF path / pasted full text. Optional flags:

  • --into <note path> — instead of creating a standalone note, prepend the digest as a ## 內容整理(快速吸收) section into an existing note (used by /paper-sync when both 🔬+📚 picked, so content sits above the appraisal in one file).
  • --no-cards — skip review-card generation/push (default is to generate).

Phase 0 — Full text is MANDATORY (hard gate)

Acquire full text per the shared protocol ~/.claude/skills/paper-review/fulltext-acquisition.md (user-provided → ${fulltext.inbox_dir} → Zotero → OA auto-fetch → Elsevier TDM → institutional SFX resolver).

If no route yields full text → STOP. Do NOT write an abstract-only digest. Report: 缺全文:{title} — 需要 PDF 才能做內容整理. When called from /paper-sync this routes to the 缺全文 handoff (logged to ${vault.inbox_note} # 缺全文待補; user supplies PDF then says「繼續」). Abstract-only is exactly the over-simplification this skill exists to avoid.

Read the full file on GitHub · 158 lines

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 2mo ago First seen · 158 lines · 148 tokens per session scan A 3feac860ea24

Subscribe to this mod's changes

paper-digest is a skill published in the GitHub repository drpwchen/paper-review-and-digest (44 stars, last pushed 2mo ago), licensed MIT. It adds 148 tokens to every session and 2,652 once invoked, about $0.0006 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

Related

paper-digest compared with skills from other repositories

paper-digest next to 6 skills from other repositories
ModTypeStarsLast pushLicenceScanTokensWorks with
paper-digestdrpwchen/paper-review-and-digestSkill442mo agoMITA148Claude Code, Codex
present-paperAperivue/medsci-skillsSkill3674d agoMITA59Claude Code
java-test-updaterArabelaTso/Skills-4-SESkill2602mo agoApache-2.0A83Claude Code, Codex
library-advisorArabelaTso/Skills-4-SESkill2602mo agoApache-2.0A117Claude Code, Codex
tactic-suggestion-assistantArabelaTso/Skills-4-SESkill2602mo agoApache-2.0A110Claude Code, Codex
verified-pseudocode-extractorArabelaTso/Skills-4-SESkill2602mo agoApache-2.0A123Claude Code, Codex
paper-writerkgraph57/paper-writer-skillSkill632mo agoMITA106Claude Code