A workflow for finding academic papers, reading and annotating them, generating citations, and receiving a daily digest. It can search sources such as OpenAlex and Semantic Scholar, which index research papers.

Use it to search selected research venues and topics, filter papers by citation count, create annotations, and prepare daily reading lists.

It brings paper discovery, notes, and citation work into one repeatable process instead of handling each task separately.

paper — Skill for Claude Code and Codex by sjqsgg/Paperwise

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 sjqsgg/Paperwise --skill paperwise

Clone the repo

git clone --depth 1 https://github.com/sjqsgg/Paperwise

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.

README.md

[![agentmods](https://agentmods.dev/badge/skills/sjqsgg/paperwise/paperwise/github.svg)](https://agentmods.dev/skills/sjqsgg/paperwise/paperwise)

Your own site

<a href="https://agentmods.dev/skills/sjqsgg/paperwise/paperwise"><img src="https://agentmods.dev/badge/skills/sjqsgg/paperwise/paperwise/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.

Your own site · 80×15

<a href="https://agentmods.dev/skills/sjqsgg/paperwise/paperwise"><img src="https://agentmods.dev/badge/skills/sjqsgg/paperwise/paperwise.svg" alt="Reviewed on agentmods" width="80" height="20"></a>

Per session 42 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.

When invoked 4,527 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.

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.

Model	Per session	Once invoked
Fable 5.1	$0.00042	$0.04527
Opus 5.5	$0.00017	$0.01811
Sonnet 5.5	$0.00008	$0.00905
Haiku 4.5	$0.00004	$0.00453

Measured 2mo ago against content hash 0446675368a4, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

paper 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.

SKILL.md · 378 lines

How it starts

The opening of the file, as written. The whole thing — 378 lines — stays where its author put it; the contents beside it link to each section on GitHub.

/paper — Academic Paper Workflow

Default Config

Edit this section to customize for your project.

output_dir: "./papers"
# Obsidian vault users: set paper_output_dir in your project's CLAUDE.md
# Drive/OneDrive: use the appropriate MCP, then set path (e.g. "gdrive://My Drive/Papers")

venues: [CHI, ACL, EMNLP, NAACL, NeurIPS, ICML, ICLR, EDM, LAK, AIED, ITS, CSCW, SIGIR, CIKM]

keywords:
  - cognitive load
  - adaptive learning
  - intelligent tutoring
  - conversational learning
  - LLM tutoring
  - learning analytics
  - behavioral signals
  - educational dialogue

min_citations: 5      # /paper find: filter out papers with fewer citations
daily_max: 10         # /paper digest: max papers per run

annotation_lang: zh   # zh = Chinese annotations | en = English; override with --lang

openalex_email: ""    # Optional. Add email to join OpenAlex Polite Pool (higher rate limits).
semantic_scholar_api_key: ""  # Optional. Free key: semanticscholar.org/product/api

Override any config value in your project's CLAUDE.md using keys: paper_output_dir, paper_venues, paper_keywords, paper_annotation_lang.

Subcommands

Command	Usage	Description
`find`	`/paper find "cognitive load LLM"`	Search papers → Digest HTML with top N cards
`read`	`/paper read /path/to/file.pdf`	Annotate a single PDF → full dual-column HTML
`digest`	`/paper digest`	Daily new papers from arxiv (used by cron)
`cite`	`/paper cite [[note-name]]`	Generate APA + BibTeX citation from existing annotation

Flags:

--context "ML课第3周" — override project context
--questions "Q1:... Q2:..." — switch to Question mode (Mode A)
--questions — interactive question mode (Claude asks you)
--output /path/ — override output directory for this run
--top N — return N results (default: 5 for find, daily_max for digest); also accepts bare number after query
--lang en — override annotation language for this run
--source arxiv — search only arxiv (latest preprints, no citation filter)
--source venues — search only papers from config venues list (citation-weighted ranking)
--local /path/ — read local PDFs from folder (no API calls); or --local a.pdf b.pdf for specific files

Read the full file on GitHub · 378 lines

Files

What ships with it

1 file beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

references/template.css 3.0 KB

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.

2mo ago First seen · 378 lines · 42 tokens per session scan A 0446675368a4

Subscribe to this mod's changes

paper is a skill published in the GitHub repository sjqsgg/Paperwise (153 stars, last pushed 7mo ago), licensed MIT. It adds 42 tokens to every session and 4,527 once invoked, about $0.0002 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.

Research Scientific

paper next to 6 skills from other repositories
Mod	Type	Stars	Last push	Licence	Scan	Tokens	Works with
papersjqsgg/Paperwise	Skill	153	7mo ago	MIT	A	42	Claude Code, Codex
instrument-data-to-allotropeanthropics/knowledge-work-plugins	Skill	35k	2d ago	Apache-2.0	A	123	Claude Code
exploratory-data-analysisK-Dense-AI/scientific-agent-skills	Skill	56k	4d ago	MIT	A	83	Claude Code
matlabK-Dense-AI/scientific-agent-skills	Skill	56k	4d ago	MIT	A	44	Claude Code
phylogeneticsK-Dense-AI/scientific-agent-skills	Skill	56k	4d ago	MIT	A	71	Claude Code, Codex
research-engineerdavila7/claude-code-templates	Skill	33k	yesterday	MIT	A	43	Claude Code, Codex
mapping-to-snomedmaziyarpanahi/openmed	Skill	5.8k	yesterday	Apache-2.0	A	205	Claude Code