GitHub Deep Research
bytedance/deer-flow
Researches a GitHub repository over four rounds using the GitHub API and web search, then writes a structured markdown report with timeline, metrics and Mermaid diagrams.
Structured methodology for conducting exhaustive multi-source investigations
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install wentorai/research-plugins in-depth-research-guide --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .claude/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .claude/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guideType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install wentorai/research-plugins in-depth-research-guide --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .agents/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .agents/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install wentorai/research-plugins in-depth-research-guide --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .cursor/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .cursor/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/wentorai/research-plugins.git --path skills/research/deep-research/in-depth-research-guide--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install wentorai/research-plugins in-depth-research-guide --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .gemini/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .gemini/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install wentorai/research-plugins in-depth-research-guideInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .github/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .github/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wentorai/research-plugins --skill in-depth-research-guide -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install wentorai/research-plugins in-depth-research-guide --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/research/deep-research/in-depth-research-guide .opencode/skills/in-depth-research-guide && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "in-depth-research-guide" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/research/deep-research/in-depth-research-guide into .opencode/skills/in-depth-research-guide/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "in-depth-research-guide", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
in-depth-research-guideStructured methodology for conducting exhaustive multi-source investigations
In Depth Research Guide is an agent skill from wentorai/research-plugins. Structured methodology for conducting exhaustive multi-source investigations
Its SKILL.md is about 1.9k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Deep research. The repository describes itself as: 350+ academic research skills, MCP configs, and plugins for Research-Claw and AI agents. The licence is MIT.
5 steps, taken from the step headings in SKILL.md.
Read from SKILL.md and the folder at commit bf44b3c. It shows what the files ask for, not the result of running them.
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
No scripts in the folder and no shell commands in SKILL.md (its code samples are markdown).
From the folder's file list and the shell code blocks in SKILL.md.
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
In Depth Research Guide loads about 1.9k tokens when it runs. Until then it costs about 25 tokens; SKILL.md has 468 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
The full file from wentorai/research-plugins at commit bf44b3c, republished under its MIT licence (© wentorai). 468 words, ~1,936 tokens.
.claude/skills/in-depth-research-guide/SKILL.md (or your agent's skills folder).In-depth research goes beyond surface-level literature review to conduct exhaustive, multi-source investigations that synthesize evidence from academic papers, grey literature, industry reports, datasets, and primary sources. This methodology is used when a research question requires comprehensive coverage — for systematic reviews, policy briefs, competitive analyses, or foundational literature surveys in a new research direction.
Before searching, define boundaries explicitly:
## Research Brief Template
**Central Question**: [One sentence, specific and falsifiable]
**Sub-Questions** (3-5):
1. [Decomposed aspect 1]
2. [Decomposed aspect 2]
3. [Decomposed aspect 3]
**Inclusion Criteria**:
- Time range: [e.g., 2018-present]
- Languages: [e.g., English, Chinese]
- Document types: [peer-reviewed, preprints, reports, patents]
- Disciplines: [e.g., CS, cognitive science, linguistics]
**Exclusion Criteria**:
- [Opinion pieces, blog posts without data]
- [Studies with n < 30 unless qualitative]
- [Duplicate publications of same study]
**Expected Deliverable**: [Literature review / Evidence map / Policy brief / State-of-art report]
**Depth Target**: [Exhaustive / Representative / Exploratory]Search systematically across source tiers:
| Tier | Source Type | Examples | Purpose |
|---|---|---|---|
| 1 | Academic databases | OpenAlex, PubMed, Scopus, Web of Science | Peer-reviewed primary research |
| 2 | Preprint servers | arXiv, bioRxiv, SSRN, medRxiv | Cutting-edge, not yet reviewed |
| 3 | Grey literature | WHO reports, World Bank, NBER working papers | Policy and institutional knowledge |
| 4 | Patents and standards | Google Patents, USPTO, IEEE standards | Technical implementations |
| 5 | Data repositories | Zenodo, Figshare, Kaggle, ICPSR | Raw data and reproducibility |
| 6 | Expert knowledge | Conference talks, interviews, personal communication | Tacit knowledge, emerging trends |
Search strategy per source:
For each source:
1. Construct 3-5 query variants (synonyms, related terms, translated terms)
2. Apply inclusion/exclusion filters
3. Record: query string, date, results count, relevant hits
4. Download and tag all relevant items
5. Snowball: check references of key papers (backward) and citing papers (forward)Rate each source on a standardized evidence hierarchy:
Level 1: Systematic reviews and meta-analyses
Level 2: Randomized controlled trials / controlled experiments
Level 3: Cohort studies / quasi-experimental designs
Level 4: Case-control studies / cross-sectional surveys
Level 5: Case reports / case series / expert opinion
Level 6: Anecdotal evidence / grey literature without methodologyCredibility checklist per source:
□ Author credentials and affiliation
□ Publication venue (impact factor, peer-review process)
□ Methodology transparency (can you replicate it?)
□ Sample size and representativeness
□ Conflict of interest disclosure
□ Recency (is the data still relevant?)
□ Citation count and reception (supportive vs. critical citations)
□ Consistency with other sources (does it converge or contradict?)Organize findings into structured artifacts:
| Finding | Source(s) | Evidence Level | Strength | Notes |
|---|---|---|---|---|
| LLMs improve code quality by 20-40% | [A], [B], [C] | Level 2-3 | Strong (convergent) | Effect varies by task complexity |
| Developers trust AI suggestions less for security-critical code | [D], [E] | Level 4 | Moderate | Small sample sizes |
| No significant effect on debugging time | [F] | Level 2 | Weak (single study) | Contradicts [A] — needs reconciliation |
When sources disagree, document systematically:
## Contradiction: Effect of X on Y
**Position A**: X increases Y (Smith 2023, Jones 2024)
- Evidence: RCT with n=500, effect size d=0.4
- Context: University students, controlled setting
**Position B**: X has no effect on Y (Lee 2024)
- Evidence: Field study with n=1200, p=0.34
- Context: Industry practitioners, naturalistic setting
**Resolution hypothesis**: The effect is moderated by expertise level.
Position A's sample (students) shows the effect;
Position B's sample (practitioners) does not.
→ Need: Study that measures expertise as a moderator.Visualize the landscape of your findings:
Central Question
├── Sub-Q1: [Strong evidence — 8 sources, convergent]
│ ├── Finding 1.1 (Level 2, 3 sources)
│ ├── Finding 1.2 (Level 3, 2 sources)
│ └── Finding 1.3 (Level 4, 3 sources)
├── Sub-Q2: [Mixed evidence — 5 sources, 1 contradiction]
│ ├── Finding 2.1 (Level 2, 2 sources)
│ └── Finding 2.2 ⚠️ CONTRADICTED by Finding 2.3
├── Sub-Q3: [Weak evidence — 2 sources, emerging area]
│ └── Finding 3.1 (Level 5, 2 sources)
└── Unexpected: [Theme that emerged during research]
└── Finding 4.1 (Level 3, 1 source) → needs further investigationCompile findings into the target deliverable format:
For a Literature Review:
For a State-of-the-Art Report:
For a Policy Brief:
Deep research is inherently iterative. After Phase 4, reassess:
After synthesis:
□ Are all sub-questions adequately answered?
□ Are there new sub-questions that emerged?
□ Are there critical gaps requiring additional search?
□ Are contradictions resolved or at least documented?
If gaps remain:
→ Return to Phase 2 with refined queries
→ Maximum 3 iteration cycles before declaring scope complete
→ Document what remains unknown (future work)A well-executed in-depth investigation should demonstrate:
© wentorai, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
Just SKILL.md in skills/research/deep-research/in-depth-research-guide of wentorai/research-plugins.
Open the folder on GitHubat commit bf44b3c
We found 1 copy of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in wentorai/research-plugins, which our catalogue first saw on October 7, 2026.
In Depth Research Guide next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| In Depth Research Guide this skillwentorai/research-plugins | 298 | 1 repos | ~1.9k | Automated safety check: Pass | MIT | |
| GitHub Deep Researchbytedance/deer-flow | 84k | 4 repos | ~1.3k | Automated safety check: Pass | MIT | |
| Deep Research WorkflowTokenRhythm/opensquilla | 7.1k | — | ~1.3k | Automated safety check: Pass | Apache-2.0 | |
| Deep Researchsanjay3290/ai-skills | 432 | 9 repos | ~683 | Automated safety check: Notes | Apache-2.0 | |
| Horizontal-Vertical Deep ResearchKKKKhazix/khazix-skills | 21k | — | ~2.1k | Automated safety check: Pass | MIT | |
| Academic Research PipelineImbad0202/academic-research-skills | 51k | — | ~15k | Automated safety check: Pass | Custom licence |
bytedance/deer-flow
Researches a GitHub repository over four rounds using the GitHub API and web search, then writes a structured markdown report with timeline, metrics and Mermaid diagrams.
TokenRhythm/opensquilla
Runs multi-round research in three stages with a persisted state file, evidence tracking and a long-form report with per-claim citations.
sanjay3290/ai-skills
Execute autonomous multi-step research using Google Gemini Deep Research Agent.
KKKKhazix/khazix-skills
Runs a two-axis deep research method on a product, company, concept or person: its full history over time, compared with peers today, delivered as a typeset PDF report.
Imbad0202/academic-research-skills
Orchestrates a ten-stage academic workflow from research to finished manuscript, including integrity checks, two rounds of peer review and revision.
Imbad0202/academic-research-skills-codex
A router skill that sends academic work such as literature reviews, drafting, citation checks, peer review and revision to the right workflow in the ARS suite.
wentorai/research-plugins
Craft structured research abstracts that maximize clarity and journal acceptance
wentorai/research-plugins
Manage academic citations across BibTeX, APA, MLA, and Chicago formats
wentorai/research-plugins
Summarize academic papers with structured extraction of key elements
wentorai/research-plugins
Evidence-based study techniques for academic learning and retention
wentorai/research-plugins
Adjust writing tone and register for academic audiences and venues
wentorai/research-plugins
Academic translation, post-editing, and Chinglish correction guide
Categories
Structured methodology for conducting exhaustive multi-source investigations. In Depth Research Guide is an agent skill from wentorai/research-plugins.
In Depth Research Guide fits situations like: tasks that involve Deep research.
Run `npx skills add wentorai/research-plugins --skill in-depth-research-guide -a claude-code`. Or copy the skill folder (skills/research/deep-research/in-depth-research-guide in wentorai/research-plugins) into .claude/skills/in-depth-research-guide in your project. Claude Code loads it when a task matches its description.
Run `npx skills add wentorai/research-plugins --skill in-depth-research-guide -a codex`. Or copy the skill folder (skills/research/deep-research/in-depth-research-guide in wentorai/research-plugins) into .agents/skills/in-depth-research-guide in your project. Codex loads it when a task matches its description.
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add wentorai/research-plugins --skill in-depth-research-guide -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/in-depth-research-guide, .gemini/skills/in-depth-research-guide, .github/skills/in-depth-research-guide and .opencode/skills/in-depth-research-guide in your project.
SKILL.md names no scripts, command-line tools or credentials: In Depth Research Guide is instructions for the agent only.
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
In Depth Research Guide is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
About 1.9k tokens (SKILL.md is roughly 7.7k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
Skills that share tags, products or a category with In Depth Research Guide: GitHub Deep Research (bytedance/deer-flow, 84k stars), Deep Research Workflow (TokenRhythm/opensquilla, 7.1k stars), Deep Research (sanjay3290/ai-skills, 432 stars) and Horizontal-Vertical Deep Research (KKKKhazix/khazix-skills, 21k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
wentorai (a GitHub user) maintains it in wentorai/research-plugins, which has 298 GitHub stars. The repository holds 405 skills in this directory. The repository was last updated on June 19, 2026.
Source: wentorai/research-plugins on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.