literature-matrix-builder

literature-matrix-builder is a skill for Claude Code, Codex from Nero1688/claude-academic-skills. It costs 501 tokens per session (2,204 once invoked), scanned A, original, MIT.

A tool for turning a collection of research papers in PDF format into an organised literature library and comparison spreadsheet. It can find identifiers such as DOIs, retrieve publication details, check for retractions, and prepare reference lists.

In plain words
What is it for?
Use it to build a literature database, compare theories, settings, methods, variables, findings, limitations, and relevance across papers, and prepare APA 7 references before writing a literature review.
Why use it?
It reduces the effort of comparing papers and helps catch risks such as citing a withdrawn paper or inventing publication details when a source cannot be verified. It leaves uncertain interpretation fields for the researcher instead of guessing.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one. Also seen: mentions Claude Code.

Good fit Use it to build a literature database, compare theories, settings, methods, variables, findings, limitations, and relevance across papers, and prepare APA 7 references before writing a literature review.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/nero1688/claude-academic-skills/literature-matrix-builder
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 Nero1688/claude-academic-skills --skill literature-matrix-builder
Clone the repo
git clone --depth 1 https://github.com/Nero1688/claude-academic-skills

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 literature-matrix-builder

README.md
[![agentmods](https://agentmods.dev/badge/skills/nero1688/claude-academic-skills/literature-matrix-builder/github.svg)](https://agentmods.dev/skills/nero1688/claude-academic-skills/literature-matrix-builder)
Your own site
<a href="https://agentmods.dev/skills/nero1688/claude-academic-skills/literature-matrix-builder"><img src="https://agentmods.dev/badge/skills/nero1688/claude-academic-skills/literature-matrix-builder/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 literature-matrix-builder

Your own site · 80×15
<a href="https://agentmods.dev/skills/nero1688/claude-academic-skills/literature-matrix-builder"><img src="https://agentmods.dev/badge/skills/nero1688/claude-academic-skills/literature-matrix-builder.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 501 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 2,204 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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00501 $0.02204
Opus 5 $0.00251 $0.01102
Sonnet 5 $0.00100 $0.00441
Haiku 4.5 $0.00050 $0.00220

Measured 12d ago against content hash c29783c5ae0d, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-12, from the pricing page.

Security

Grade A, and why

literature-matrix-builder 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 12d ago.

The scan reads SKILL.md. This mod also ships 1 executable file (scripts/litmatrix.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

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.

skills/literature-matrix-builder/SKILL.md · 113 lines

How it starts

The opening of the file, as written. The whole thing — 113 lines — stays where its author put it; the contents beside it link to each section on GitHub.

文獻矩陣建置器(Literature Matrix Builder)

與同族 skill 分工

需求 該用
內文引用與參考文獻清單對不對得上、有無孤兒引用 citation-verifier
這篇文獻真的存在嗎(查 CrossRef/Semantic Scholar/OpenAlex) check-citations
系統性回顧方法論(PRISMA 流程圖、偏誤風險、meta-analysis) phd-researcher
建文獻庫、把文獻排開來橫向比較 本 skill

一句話:查引用真偽找那兩支,做正式 SR/MA 找 phd-researcher, 建庫與比較找我。 本 skill 產出的矩陣可直接餵給 phd-researcher 做正式回顧。 Claude Code 環境呼叫同族技能須加 anthropic-skills: 前綴。

核心原則

  1. 絕不代填綜整欄。 理論視角、主要發現、與本研究的關聯這些欄位, 工具一律留空並標黃底。你可以協助研究者填(讀完 PDF 後一起討論填什麼), 但絕不憑摘要臆測——摘要看不出研究設計細節,猜出來的內容會一路錯進文獻回顧。
  2. 撤稿查核在建檔當下做,不等事後。 每次 add 自動反查 Crossref 的撤稿通知 (filter=update-type:retraction,updates:{DOI})。已用陽性/陰性對照實測: 已知被撤論文測得出、三篇正常論文不誤報。 ⚠️ 查核失敗 ≠ 沒被撤稿——工具會標「⚠️ 查核失敗」而非「未發現」, 這個區別攸關學術風險,不可混為一談。 ⚠️ Elsevier 慣例是把撤稿通知放在同一個 DOI(原文被替換成撤稿聲明)。
  3. 不編造書目。 DOI 查不到就回報「查無」,不要用 LLM 記憶補書目資料—— 那正是幻覺文獻的來源。腳本已內建此行為(CrossRef 404 直接報錯)。
  4. 摘要有著作權。 CrossRef 回傳的 abstract 著作權通常仍屬出版社。 存進自己的文獻庫供個人研究閱讀屬合理使用,但不要公開重製散布, 文獻回顧中也應改寫轉述而非整段照抄。
  5. PDF 抽不到 DOI 是常態,不是失敗。 掃描版 PDF(無文字層)、舊文獻、 工作論文都可能沒有 DOI。此時改用 --doi 手動指定,或誠實告知該篇需人工建檔。
  6. 引用代碼要與論文一致。 產出的 key(如 Aguinis2012)若與使用者慣用的 BibTeX key 不同,以使用者的為準——這關係到內文引用能否對上。

工作流程

Step 1|建立文獻庫

python scripts/litmatrix.py init -d ./lit

產生 01_pdf/(PDF 原檔)、02_notes/(閱讀筆記)、03_output/(Excel) 與 library.json(單一事實來源)。

Step 2|逐篇加入

python scripts/litmatrix.py add -d ./lit --pdf 01_pdf/paper.pdf   # 自動找 DOI
python scripts/litmatrix.py add -d ./lit --doi 10.1177/0149206311436079

加入前可先 lookup --doi 確認抓到的書目正確再寫入。

Step 3|填綜整欄(本 skill 最有價值的一步)

讀完論文後填 library.json 裡的 10 個綜整欄。你在這一步的角色: 陪使用者一起讀、一起判斷,把口語討論轉成矩陣欄位的精簡文字。 欄位定義與填寫判準見 references/matrix-columns.md

Step 4|產出 Excel 矩陣

python scripts/litmatrix.py build -d ./lit

產出兩張表:文獻矩陣(黃底=待填)與待補清單(哪幾篇還缺哪些欄)。

Read the full file on GitHub · 113 lines

Files

What ships with it

4 files 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.

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. 12d ago First seen · 113 lines · 501 tokens per session scan A c29783c5ae0d

Subscribe to this mod's changes

literature-matrix-builder is a skill published in the GitHub repository Nero1688/claude-academic-skills (6 stars, last pushed 9d ago), licensed MIT. It adds 501 tokens to every session and 2,204 once invoked, about $0.0025 per session on Opus 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 2026-08-31.

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