deep-research

deep-research is a skill for Claude Code from jush-website/traceable-research-mcp. It costs 38 tokens per session (609 once invoked), scanned A, original, MIT.

A workflow for producing literature reviews from free scholarly research sources. It requires each empirical claim in the report to point to evidence identifiers and distinguishes abstracts or metadata from full-text support.

In plain words
What is it for?
Planning and conducting evidence-linked reviews of academic research, with topic, language, date, and publication-type filters.
Why use it?
It makes the research trail visible and helps prevent claims from being presented as supported by evidence they do not contain.

Skill for Claude Code

Written for Claude Code: shipped in a Claude Code plugin. Also seen: mentions Claude Code; mentions Codex.

Part of the deep-research-toolkit plugin — 1 skill, 1 MCP server shipped together

Good fit Planning and conducting evidence-linked reviews of academic research, with topic, language, date, and publication-type filters.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/jush-website/traceable-research-mcp/deep-research
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 jush-website/traceable-research-mcp --skill deep-research
Clone the repo
git clone --depth 1 https://github.com/jush-website/traceable-research-mcp

Made for: Claude Code.

Or install deep-research-toolkit, the plugin that ships this one along with the rest of its 1 skill, 1 MCP server.

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 deep-research

README.md
[![agentmods](https://agentmods.dev/badge/skills/jush-website/traceable-research-mcp/deep-research/github.svg)](https://agentmods.dev/skills/jush-website/traceable-research-mcp/deep-research)
Your own site
<a href="https://agentmods.dev/skills/jush-website/traceable-research-mcp/deep-research"><img src="https://agentmods.dev/badge/skills/jush-website/traceable-research-mcp/deep-research/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 deep-research

Your own site · 80×15
<a href="https://agentmods.dev/skills/jush-website/traceable-research-mcp/deep-research"><img src="https://agentmods.dev/badge/skills/jush-website/traceable-research-mcp/deep-research.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 38 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 609 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 $0.00038 $0.00609
Opus 5 $0.00019 $0.00304
Sonnet 5 $0.00008 $0.00122
Haiku 4.5 $0.00004 $0.00061

Measured 8d ago against content hash 2beeb6ed2bec, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-08, from the pricing page.

Security

Grade A, and why

deep-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.

plugins/deep-research-toolkit/skills/deep-research/SKILL.md · 50 lines

How it starts

The opening of the file, as written. The whole thing — 50 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Deep Research

Produce a traceable literature review. Every empirical claim in the final report must link to evidence IDs returned by the MCP server. Never claim full-text support from abstract_only or metadata_only evidence, and never bypass paywalls or access controls.

Workflow

Follow these steps in order. Do not call approve_research_plan before the user explicitly approves the plan.

  1. Clarify the topic, research questions, language (zh-TW or en), profile (quick, standard, deep), keywords, and any year or publication-type filters.
  2. Confirm the storage location before calling any tool. Reports always land in .deep-research/reports/ under the folder the MCP server was launched from (i.e. the folder the user opened Claude Code / Codex in) — this cannot be changed mid-session by a tool call. As soon as the user states a topic, ask: "這份研究要存到指定資料夾嗎?若不指定,會統一存放 在目前這個資料夾()。" If they want a different folder, tell them to close and reopen the client from that folder, then start over from step 1. If they confirm the current folder is fine, proceed.
  3. Create the plan with create_research_plan. This registers a draft and performs no network retrieval.
  4. Present the plan back to the user and wait for explicit approval.
  5. Approve with approve_research_plan only after the user says yes. This schedules the background pipeline.
  6. Poll get_research_status at a relaxed cadence until the status reaches ready_for_synthesis. Do not busy-wait.
  7. Page through get_evidence_bundle (using offset/limit) to read the evidence. Use get_source for full metadata when needed.
  8. Distinguish evidence levels. See references/evidence-rules.md. Do not expand scope beyond what the evidence supports.
  9. Submit a ReportDraft with submit_report, linking every empirical claim to evidence IDs.
  10. Resolve any validation errors and surface the warnings to the user.
  11. Export with export_report and give the user the output file paths.

Read the full file on GitHub · 50 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.

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 · 50 lines · 38 tokens per session scan A 2beeb6ed2bec

Subscribe to this mod's changes

deep-research is a skill published in the GitHub repository jush-website/traceable-research-mcp (0 stars, last pushed 1mo ago), licensed MIT. It adds 38 tokens to every session and 609 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 2026-08-31.

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