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AI-assisted academic research workflows for literature review, paper writing, peer review, and research pipelines
Install with Codex or Claude Copy this prompt, paste it into Codex, Claude, or another assistant, and let it review the skill page and install it for you.
Based on SOC occupation classification
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| name | academic-research-skills-codex |
| description | AI-assisted academic research workflows for literature review, paper writing, peer review, and research pipelines |
| triggers | ["help me write an academic paper","conduct a literature review","review this research manuscript","plan a systematic review","generate research paper outline","format academic citations","run academic research pipeline","peer review simulation"] |
Skill by ara.so — Codex Skills collection.
This skill provides a comprehensive suite of AI-assisted academic research workflows including deep research, paper writing, peer review, and end-to-end research pipelines. Originally designed for Claude Code, this Codex-native package routes requests to specialized research agents based on user intent.
Academic Research Skills (ARS) for Codex provides five core workflows:
Install using the Codex skill installer with git method:
python "$HOME/.codex/skills/.system/skill-installer/scripts/install-skill-from-github.py" \
--repo Imbad0202/academic-research-skills-codex \
--ref main \
--path skills/academic-research-suite \
--method git
rm -rf "$HOME/.codex/skills/academic-research-suite"
python "$HOME/.codex/skills/.system/skill-installer/scripts/install-skill-from-github.py" \
--repo Imbad0202/academic-research-skills-codex \
--ref main \
--path skills/academic-research-suite \
--method git
After installation, open a new Codex conversation to activate the skill.
/skills
You should see one entry: academic-research-suite. You should NOT see separate entries for academic-paper, deep-research, etc.
Use $academic-research-suite followed by your research task:
Use $academic-research-suite to help me plan a systematic literature review on
AI adoption in higher education quality assurance.
The Codex adapter automatically routes to the appropriate workflow based on your request.
| Workflow | When to Use | Example Trigger |
|---|---|---|
deep-research | Need research question refinement, literature review, fact-checking | "conduct a systematic review on..." |
academic-paper | Need paper outline, drafting, citations, revision | "write a research paper about..." |
academic-paper-reviewer | Need manuscript review, peer review simulation | "review this research manuscript..." |
academic-pipeline | Need full research-to-publication workflow | "run end-to-end pipeline from topic to paper" |
experiment-agent | Need code experiment design, study protocols | "plan a reproducible code experiment..." |
For best results, provide goal, current state, and constraints:
Use $academic-research-suite.
Goal: write a journal article on AI in higher education QA
Current materials: literature matrix and rough findings, no outline yet
Output needed: paper architecture and evidence checklist
Constraints: English, APA 7, policy audience
Codex emulates Claude Code /ars-* commands as aliases:
| Alias | Workflow | Purpose |
|---|---|---|
ars-plan | academic-paper | Create paper plan/structure |
ars-outline | academic-paper | Generate outline only |
ars-abstract | academic-paper | Draft abstract |
ars-lit-review | academic-paper | Build literature review |
ars-citation-check | academic-paper | Verify citations |
ars-disclosure | academic-paper | Generate AI disclosure statement |
ars-format-convert | academic-paper | Convert between formats |
ars-revision-coach | academic-paper | Get revision guidance |
ars-revision | academic-paper | Execute revisions |
ars-full | academic-pipeline | Run full pipeline |
Either prefix style works:
Use $academic-research-suite: ars-plan my paper on AI governance
Or if your client supports it:
/ars-plan my paper on AI governance
When you have a broad topic but no clear research question:
Use $academic-research-suite.
I want to write about AI adoption in higher education quality assurance.
I don't have a clear research question yet.
Use Socratic dialogue to help me narrow the question first.
Expected: ARS asks narrowing questions before producing an outline.
Use $academic-research-suite.
Task: Turn these research notes into an IMRaD paper.
Materials: [attach notes.md, data_summary.csv]
Target: 6000-8000 words, APA 7, submit to Higher Education Research
Output: Full outline with section word counts, then draft intro
Use $academic-research-suite to review this manuscript.
Mode: full review
Focus: methodology, contribution, citation integrity, desk-reject risks
Output: reviewer reports + editorial decision letter
[attach manuscript.pdf or manuscript.md]
For checkpoint-based workflow:
Use $academic-research-suite to start an academic-pipeline run.
Begin with Stage 0 intake and stop after producing the pipeline dashboard.
Wait for my approval before Stage 1.
Use $academic-research-suite experiment-agent.
Plan a code experiment comparing three ML models on education dataset.
Requirements: reproducible, statistical rigor, version control, artifact storage
Output: experiment protocol + reproducibility checklist
For cross-model verification (optional):
export ARS_CROSS_MODEL=claude-opus-4.7
export ANTHROPIC_API_KEY=your_api_key_here
Without these, ARS runs entirely within Codex/OpenAI. Cross-model review uses Anthropic API when explicitly requested.
ARS tracks research artifacts through "Material Passports" - metadata files that follow:
{
"artifact_id": "paper_v1_outline",
"created": "2026-05-17T10:30:00Z",
"workflow": "academic-paper",
"stage": "outline",
"integrity_checks": ["citation_format", "structure"],
"sources": ["source1.pdf", "source2.pdf"],
"status": "approved"
}
Reset Material Passport by starting a new Codex conversation.
Use $academic-research-suite: ars-citation-check
[paste paper text with citations]
Verify all citations are formatted correctly in APA 7.
Flag any unverifiable sources.
Expected output:
Use $academic-research-suite: ars-lit-review
Topic: AI ethics in higher education
Scope: 2020-2026, peer-reviewed only
Output: thematic synthesis with citation matrix
Use $academic-research-suite: ars-format-convert
Input: [attach paper.md]
From: Markdown
To: LaTeX (IEEE conference template)
Preserve: citations, figures, tables
Use $academic-research-suite: ars-disclosure
Paper stage: final draft before submission
AI tools used: Codex for literature search, outline generation, citation formatting
Human contribution: research design, analysis, interpretation, revision
Output: journal-ready disclosure statement
For guidance without executing changes:
Use $academic-research-suite: ars-revision-coach
[attach draft.md and reviewer_comments.txt]
Analyze reviewer feedback and suggest revision strategy.
Prioritize major vs minor revisions.
Do not rewrite yet - provide plan only.
Use $academic-research-suite: ars-revision
[attach draft.md and reviewer_comments.txt]
Execute revisions based on Reviewer 2 methodology concerns.
Track changes: show original -> revised for each section.
Update Material Passport with revision metadata.
If /skills doesn't show academic-research-suite:
ls -la "$HOME/.codex/skills/academic-research-suite"If you see academic-paper, deep-research, etc. as separate skills:
# Remove all ARS skills
rm -rf "$HOME/.codex/skills/academic-"*
rm -rf "$HOME/.codex/skills/deep-research"
rm -rf "$HOME/.codex/skills/experiment-agent"
# Reinstall single suite
python "$HOME/.codex/skills/.system/skill-installer/scripts/install-skill-from-github.py" \
--repo Imbad0202/academic-research-skills-codex \
--ref main \
--path skills/academic-research-suite \
--method git
If ARS routes to the wrong workflow, be more explicit:
Use $academic-research-suite deep-research workflow in socratic mode.
[your request]
Or use specific alias:
Use $academic-research-suite: ars-outline
[your request]
When citations cannot be verified:
ars-citation-check mode with source files attachedThese warnings are non-blocking:
[features].codex_hooks is deprecated - update Codex config when convenienthooks need review before they can run - ARS Codex doesn't require hooks for normal useUse $academic-research-suite academic-pipeline workflow.
Stage 0: Intake and dashboard
STOP and show dashboard for approval
[After approval]
Stage 1: Research question refinement via Socratic dialogue
STOP and show refined question
[Continue stage by stage]
Use $academic-research-suite deep-research workflow.
Search strategy: parallel tracks
Track 1: Scopus, Web of Science - quantitative studies
Track 2: Google Scholar - grey literature, policy docs
Track 3: Specialized databases - ERIC, ProQuest Education
Synthesize results into single literature matrix.
Use $academic-research-suite academic-paper-reviewer workflow.
Pass 1: Structure and contribution (desk-reject check)
[Wait for my review]
Pass 2: Methodology rigor
[Wait for my review]
Pass 3: Citation integrity and ethics
[Final decision]
Use $academic-research-suite: ars-citation-check
Citation library: Zotero export attached (bibtex format)
Paper: [attach draft.md]
Cross-check all in-text citations against Zotero library.
Flag missing entries and formatting errors.
Use $academic-research-suite experiment-agent workflow.
Existing analysis: [attach analysis.py, results.csv]
Task: Create reproducible experiment protocol around this analysis
Output: protocol.md, requirements.txt, reproduction checklist
Use $academic-research-suite: ars-format-convert
Input: [attach paper.md]
Template: University PhD thesis LaTeX template [attach template.tex]
Preserve: custom environments for theorems, university citation style
Test routing without full execution:
codex exec --ephemeral --sandbox read-only \
-C /path/to/academic-research-skills-codex \
'Use $academic-research-suite. Router smoke test only. Classify workflow and mode for: I want to write a paper on AI adoption but do not have a research question yet.'
Expected: Route to deep-research socratic mode.
This Codex package differs from the original Claude Code ARS:
| Feature | Claude Code | Codex Package |
|---|---|---|
| Installation | Plugin marketplace | Git-based skill installer |
| Commands | Native /ars-* slash commands | Emulated aliases via router |
| Agent teams | Automatic background agents | Inline unless explicitly delegated |
| Hooks | SessionStart, SubagentStop | Vendored for traceability only |
| Cross-model review | GPT/Gemini secondary dispatch | Anthropic Claude API (explicit config) |
| Updates | Marketplace auto-update | Manual reinstall |
1d0c8625207c9cd8fc46132b1ef930f2cc012236skills/academic-research-suite/ars/docs/SETUP.mdskills/academic-research-suite/ars/docs/ARCHITECTURE.mdFor issues specific to the Codex packaging, open an issue at the Codex package repository. For ARS workflow issues, consult the original Claude Code repository.