DeepPaperNote is an agent skill that reads one research paper and turns its content into a structured Obsidian research note. It is for researchers and learners who want to preserve a paper’s question, methods, evidence, results, and figures in an academic knowledge base. The catalogue entries are its agent skills, instructions, and plugin packaging for use with coding agents.
Borrowing it
Nothing to install: this file belongs to 917Dhj/DeepPaperNote. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.
curl -O https://raw.githubusercontent.com/917Dhj/DeepPaperNote/main/AGENTS.mdgit clone --depth 1 https://github.com/917Dhj/DeepPaperNoteWrote 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.
[](https://agentmods.dev/instructions/917dhj/deeppapernote/agents-md)<a href="https://agentmods.dev/instructions/917dhj/deeppapernote/agents-md"><img src="https://agentmods.dev/badge/instructions/917dhj/deeppapernote/agents-md/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.
<a href="https://agentmods.dev/instructions/917dhj/deeppapernote/agents-md"><img src="https://agentmods.dev/badge/instructions/917dhj/deeppapernote/agents-md.svg" alt="Reviewed on agentmods" width="80" height="20"></a>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.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00795 | $0.00795 |
| Opus 5.5 | $0.00318 | $0.00318 |
| Sonnet 5.5 | $0.00159 | $0.00159 |
| Haiku 4.5 | $0.00080 | $0.00080 |
Grade A, and why
DeepPaperNote AGENTS.md 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 29d 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.
How it starts
The opening of the file, as written. The whole thing — 80 lines — stays where its author put it; the contents beside it link to each section on GitHub.
DeepPaperNote Agent Guide
Repository Purpose
DeepPaperNote is:
- a dual-stack Claude Code and Codex plugin repository
- designed for deep reading of one paper at a time
- intended to support both Claude Code and Codex
- focused on producing a high-quality Obsidian-oriented paper note
DeepPaperNote is not:
- a multi-paper review framework
- a shallow summary generator
Canonical Sources
Use the following source-of-truth hierarchy when working in this repository:
skills/deeppapernote/SKILL.mdis the canonical workflow definitionskills/deeppapernote/scripts/andskills/deeppapernote/references/are part of the reusable coreREADME.mdandREADME.zh-CN.mdare user-facing documentation, not the canonical workflowskills/deeppapernote/agents/openai.yamlis the Codex adapter layer.claude-plugin/plugin.jsonand.codex-plugin/plugin.jsonare host manifests and should stay thin
Adapter layers should stay thin and should not redefine the workflow independently.
Non-Negotiable Product Invariants
Future changes should preserve these product invariants:
- DeepPaperNote handles one paper at a time
- the workflow remains evidence-first
- required stages must not be silently skipped
- weak evidence should fail closed rather than being presented as a full deep read
- figure and table placeholder-first handling remains required
- lint plus final readability review remain required before completion
- Obsidian-first save semantics remain intact
- the paper-local
images/directory remains part of the save protocol - scripts remain deterministic support tools, while paper understanding and final note writing remain model-led
Repository Structure
The repository is layered as follows:
skills/deeppapernote/SKILL.mdis the canonical workflow definition and the skill entrypoint for both Claude Code and other agentsCLAUDE.mdprovides Claude Code project-level guidance and includesAGENTS.mdvia@AGENTS.md.claude-plugin/plugin.jsonand.claude-plugin/marketplace.jsonidentify the Claude Code plugin and its marketplace entry.codex-plugin/plugin.jsonidentifies the Codex pluginskills/deeppapernote/references/stores durable workflow and writing guidanceskills/deeppapernote/scripts/implements the deterministic pipeline and support utilitiesskills/deeppapernote/agents/openai.yamlis the Codex adapterREADME.mdandREADME.zh-CN.mdare user-facing documentation
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.
- 29d ago Changed · +14 tokens per session 054f1337983a
- 1mo ago First seen · 80 lines · 781 tokens per session scan A 51998aecaa0b
DeepPaperNote AGENTS.md is an instructions file published in the GitHub repository 917Dhj/DeepPaperNote (1,248 stars, last pushed yesterday), licensed MIT. It adds 795 tokens to every session, about $0.0032 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.
Other instructions, from other repositories
vscode buildNext.instructions.md
Working notes and architecture documentation for the new esbuild-based build system in build/next. Use when making changes to the new build pipeline (transpile/bundle commands, NLS plugin, source-map handling, resource copying, or self-hosting watch tasks).
next.js AGENTS.md
AGENTS.md instructions for vercel/next.js, covering next.js development guide, codebase structure, monorepo overview, core package: packages/next and other important packages.
vscode oss-third-party-notices.instructions.md
Instructions for microsoft/vscode, covering vs code oss third-party-notices pipeline, architecture, pipeline flow in ci, cache eligibility and rollout and applying the notice (cutover).
langchain AGENTS.md
AGENTS.md instructions for langchain-ai/langchain, covering global development guidelines for the langchain monorepo, corridor security analysis, project architecture and context, monorepo structure and development tools & commands.
vscode copilot-instructions.md
Copilot instructions for microsoft/vscode, covering vs code copilot instructions, project overview, root folders, core architecture (src/ folder) and built-in extensions (extensions/ folder).
deno copilot-instructions.md
Copilot instructions for denoland/deno, covering deno development guide for github copilot, network access, high level overview, key directories and key files to understand first.