empiricalwiki: Skill for Claude Code

.claude/skills/research/SKILL.md

research is a skill for Claude Code from Lambenthan/empiricalwiki. It costs 36 tokens per session (6,180 once invoked), scanned A, original, MIT.

An end-to-end research workflow that moves from finding ideas through experiment design, execution, evaluation, and paper writing, with saved progress and review checkpoints.

In plain words
What is it for?
Use it to run research from a direction or brief, monitor deployed experiments, skip paper writing when needed, or resume from a selected stage.
Why use it?
It keeps the stages of a research project connected and lets you resume after an interruption.

Skill for Claude Code

Written for Claude Code: argument-hint in frontmatter. Also seen: names the AskUserQuestion tool; mentions Claude Code.

This is Lambenthan/empiricalwiki's own configuration. It tells Claude Code how to work on empiricalwiki itself, so it is not a mod to install elsewhere. Copy it as a starting point and replace the rules that are about this project. Everything empiricalwiki configures →

Needs its repository: it runs a file that does not travel with it, so clone the repository first. The line is python3 tools/research_wiki.py log wiki/ \.

Reuse

Borrowing it

Nothing to install: this file belongs to Lambenthan/empiricalwiki. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file
curl -O https://raw.githubusercontent.com/Lambenthan/empiricalwiki/main/.claude/skills/research/SKILL.md
Clone the repo
git clone --depth 1 https://github.com/Lambenthan/empiricalwiki

Made for: Claude Code.

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 research

README.md
[![agentmods](https://agentmods.dev/badge/skills/lambenthan/empiricalwiki/research.svg)](https://agentmods.dev/skills/lambenthan/empiricalwiki/research)
Your own site
<a href="https://agentmods.dev/skills/lambenthan/empiricalwiki/research"><img src="https://agentmods.dev/badge/skills/lambenthan/empiricalwiki/research.svg" alt="Measured on agentmods" height="20"></a>
Per session 36 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 6,180 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 $0.00036 $0.06180
Opus 5 $0.00018 $0.03090
Sonnet 5 $0.00007 $0.01236
Haiku 4.5 $0.00004 $0.00618

Measured 8d ago against content hash 70c085f970ff, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-07, from the pricing page.

Security

Grade A, and why

research 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 8d 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.

.claude/skills/research/SKILL.md · 549 lines

How it starts

The opening of the file, as written. The whole thing — 549 lines — stays where its author put it; the contents beside it link to each section on GitHub.

/research

端到端研究编排器,将所有 skill 组合为完整的研究流程。 Stage 0 (Bootstrap) + 5 个 Stage + 2 个 Human Gate,覆盖从空 wiki 到论文提交的全流程。 零摩擦入口:wiki 为空时自动触发 Bootstrap(搜索 + auto-ingest 5 篇论文),无需手动 /init。 每个 Gate 和 Stage 保存进度到 wiki/outputs/pipeline-progress.md,支持跨 session 恢复。

Stage 3 为非阻塞设计:实验部署后立即返回(--auto 模式自动设置 CronCreate 每 30 分钟监控), 实验全部完成后自动进入 Stage 4。可随时用 /exp-status 查看进度。

--auto 模式跳过人工确认(自动选 top-1 idea),--skip-paper 只做研究不写论文。

Inputs

  • direction:研究方向描述或 RESEARCH_BRIEF.md 文件路径
    • 文本形式:一句话描述研究方向(如 "sparse LoRA for edge devices")
    • 文件形式:结构化的 RESEARCH_BRIEF.md(含 domain、constraints、target venues)
  • --auto(可选):全自动模式,Gate 1 自动选 top-1 idea,Gate 2 自动继续,Stage 3b 自动 CronCreate
  • --start-from <stage>(可选):从指定 stage 恢复执行
    • 有效值:stage1stage2stage3stage3-collectstage3-checkstage4stage5
    • stage3-collect:跳过 deploy,直接进入 Stage 3c(收集已部署实验的结果)
    • stage3-check:只检查实验状态(等同于 /exp-status --pipeline {slug}),不继续执行
    • 需要 wiki/outputs/pipeline-progress.md 存在
  • --skip-paper(可选):只做研究(Stage 1-4),不写论文(跳过 Stage 5),但仍执行 /exp-eval(Stage 4)
  • --venue(可选):目标会议(ICLR / NeurIPS / ICML / ACL / CVPR),传递给 /paper-plan

Outputs

  • wiki 更新(通过子 skill 委托):ideas/、experiments/、claims/、outputs/、graph/
  • wiki/outputs/pipeline-progress.md — 流水线进度快照(用于恢复)
  • wiki/outputs/PIPELINE_REPORT.md — 完整流水线报告
  • paper/ 目录(若未 --skip-paper)— 可提交的论文
  • wiki/log.md — 每个 stage 追加日志

Wiki Interaction

Reads

  • wiki/graph/context_brief.md — 全局上下文(传递给子 skills)
  • wiki/graph/open_questions.md — 知识缺口(传递给 /ideate)
  • wiki/ideas/*.md — Gate 1 选择、Stage 4 判决
  • wiki/experiments/*.md — Stage 3-4 状态检查
  • wiki/claims/*.md — Stage 4 判决、Stage 5 论文规划
  • wiki/outputs/pipeline-progress.md — --start-from 恢复状态
  • wiki/papers/*.md — Stage 5 论文写作上下文

Writes

  • wiki/outputs/pipeline-progress.md — 每个 Gate 保存进度(委托写入 wiki 实体的操作由子 skill 完成)
  • wiki/outputs/PIPELINE_REPORT.md — 最终报告
  • wiki/log.md — 追加日志
  • 其他 wiki 实体写入均通过子 skill 委托(不直接写入 ideas/experiments/claims/)

Read the full file on GitHub · 549 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. 8d ago First seen · 549 lines · 36 tokens per session scan A 70c085f970ff

Subscribe to this mod's changes

research is a skill published in the GitHub repository Lambenthan/empiricalwiki (82 stars, last pushed 2mo ago), licensed MIT. It adds 36 tokens to every session and 6,180 once invoked, about $0.0002 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 2026-08-30.

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grant-proposal

Scaffold a research grant proposal (NSF, NIH, ERC, or foundation) by composing existing primitives — pulls identification strategy from an /interview-me spec, delegates the data-management plan to /data-management-plan and the facilities statement to /capture-environment, and emits a funder-requirements checklist. Use…

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preregister

Draft a structured preregistration document (OSF, AsPredicted, or AEA RCT Registry style) from a research spec or free-form study description. Output is a Markdown file with hypotheses, design, sampling plan, analysis plan, exclusions, and inference criteria — annotated with MUST / SHOULD / MAY clarity flags. Use when…

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capture-environment

Snapshot the computational environment for a replication package — detects the analysis stack (R / Stata / Python) and emits the right lockfiles (renv.lock + sessionInfo.txt, requirements.txt / environment.yml / uv.lock, Stata version + ado package list), records seeds and RNG kind, optionally writes a pinning…

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data-management-plan

Draft a funder-compliant Data Management Plan (NSF DMP, NIH DMS Policy 2023, ERC, Horizon Europe) by composing the confidential-data and environment-capture primitives. Sections cover data description, formats/metadata, storage/backup, access/sharing, preservation/archiving, and roles. Use when user says "data…

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