Academic Paper — Academic Paper Writing Agent Team

A general-purpose academic paper writing tool — 12-agent pipeline covering all disciplines, with higher education domain as the default reference.

v2.5

adds two writing quality features:

Style Calibration

(intake Step 10, optional) — Provide 3+ past papers and the pipeline learns your writing voice (sentence rhythm, vocabulary preferences, citation integration style). Applied as a soft guide during drafting; discipline conventions always take priority. See

shared/style_calibration_protocol.md

.

Writing Quality Check

(

references/writing_quality_check.md

) — A writing quality checklist applied during the draft self-review step. Catches overused AI-typical terms, em dash overuse, throat-clearing openers, uniform paragraph lengths, and monotonous sentence rhythm. These are good writing rules, not detection evasion.

Quick Start

Minimal command:

Write a paper on the impact of AI on higher education quality assurance

Write a paper on the impact of declining birth rates on private university management strategies

Execution flow:

Configuration interview — paper type, discipline, citation format, output format

Literature search — systematic search strategy, source screening

Architecture design — paper structure, outline, word count allocation

Argumentation construction — claim-evidence chains, logical flow

Full-text drafting — section-by-section draft, register adjustment

Citation compliance + bilingual abstract (parallel)

Peer review — five-dimension scoring, revision suggestions

Output formatting — LaTeX/DOCX (via Pandoc)/PDF/Markdown

Trigger Conditions

Trigger Keywords

English

write paper, academic paper, paper outline, write abstract, revise paper, literature review paper, check citations, convert to LaTeX, convert format, format paper, conference paper, journal article, thesis chapter, research paper, guide my paper, help me plan my paper, step by step paper, draft manuscript, write methodology, write discussion, parse reviews, revision roadmap, help me with my revision, I got reviewer comments, convert citations

繁體中文

寫論文, 學術論文, 論文大綱, 寫摘要, 修改論文, 文獻回顧論文, 檢查引用, 轉 LaTeX, 轉換格式, 研討會論文, 期刊文章, 學位論文, 研究論文, 引導我寫論文, 幫我規劃論文, 逐步寫論文, 寫方法論, 寫討論, 審查意見, 修訂路線圖, 幫我修改, 我收到審查意見, 轉換引用格式

Plan Mode Activation

Activate

plan

mode when the user wants guidance, step-by-step planning, or expresses uncertainty about paper structure.

Default rule

when ambiguous between plan and full , prefer plan . See references/plan_mode_protocol.md for full intent signals and activation rules. Does NOT Trigger Scenario Use Instead Deep research / fact-checking (not paper writing) deep-research Reviewing a paper (structured review) academic-paper-reviewer Full research-to-paper pipeline academic-pipeline Distinction from deep-research Feature academic-paper deep-research Primary output Publishable paper draft Research report Structure Journal-ready (IMRaD, etc.) APA 7.0 report Citation Multi-format (APA/Chicago/MLA/IEEE/Vancouver) APA 7.0 only Abstract Bilingual (zh-TW + EN) Single language Peer review Simulated 5-dimension review Editorial review Output format LaTeX/DOCX (via Pandoc)/PDF/Markdown Markdown only Revision loop Max 2 rounds with targeted feedback Max 2 rounds Agent Team (12 Agents)

Agent

Role

Phase

1

intake_agent

Configuration interview: paper type, discipline, journal, citation format, output format, language, word count; Handoff detection; Plan mode simplified interview

Phase 0

2

literature_strategist_agent

Search strategy design, source screening, annotated bibliography, literature matrix

Phase 1

3

structure_architect_agent

Paper structure selection, detailed outline, word count allocation, evidence mapping

Phase 2

4

argument_builder_agent

Argument construction, claim-evidence chains, logical flow, counter-argument handling; Plan mode argument stress test

Phase 3 / Plan Step 3

5

draft_writer_agent

Section-by-section full draft writing, discipline register adjustment, word count tracking

Phase 4

6

citation_compliance_agent

Citation format verification, reference list completeness, DOI checking

Phase 5a

7

abstract_bilingual_agent

Bilingual abstract (zh-TW + EN), 5-7 keywords each

Phase 5b

8

peer_reviewer_agent

Simulated double-blind review, five-dimension scoring, revision suggestions (max 2 rounds)

Phase 6

9

formatter_agent

Convert to LaTeX/DOCX (via Pandoc)/PDF/Markdown, journal formatting, cover letter, citation format conversion (APA 7 / Chicago / MLA / IEEE / Vancouver)

Phase 7

10

socratic_mentor_agent

Plan mode Socratic mentor: chapter-by-chapter guidance, convergence criteria (4 signals), question taxonomy (4 types), INSIGHT extraction

Plan Step 0-3

11

visualization_agent

Parse paper data and generate publication-quality figure code (Python matplotlib / R ggplot2) with APA 7.0 formatting, colorblind-safe palettes, and LaTeX integration

Phase 4 / Phase 7

12

revision_coach_agent

Parse unstructured reviewer comments into structured Revision Roadmap; classify, map, and prioritize comments; works standalone without prior pipeline execution

Revision-Coach mode

Output Formats

Text Formats

LaTeX (.tex + .bib), DOCX (via Pandoc), PDF (via LaTeX or Pandoc), Markdown.

Figures

When the paper contains quantitative results, the

visualization_agent

can generate publication-ready figures in Python (matplotlib/seaborn) or R (ggplot2) with APA 7.0 formatting and colorblind-safe palettes. Figures are delivered as runnable code + LaTeX

\includegraphics

integration code. See

references/statistical_visualization_standards.md

for chart type decision trees and code templates.

Citation Formats

APA 7.0 (default), Chicago (Author-Date or Notes-Bibliography), MLA 9, IEEE, Vancouver. The

formatter_agent

supports late-stage citation format conversion between any two supported formats via "Convert citations to [format]".

Orchestration Workflow (8 Phases)

Phase 0: CONFIG -> [intake_agent] -> Paper Configuration Record

Phase 1: RESEARCH -> [literature_strategist] -> Search Strategy + Source Corpus

Phase 2: ARCHITECTURE -> [structure_architect] -> Paper Outline + Evidence Map

Phase 3: ARGUMENTATION -> [argument_builder] -> Argument Blueprint

Phase 4: DRAFTING -> [draft_writer] -> Complete Draft

Phase 5a: CITATIONS -> [citation_compliance] ──┐ -> Citation Audit Report

Phase 5b: ABSTRACT -> [abstract_bilingual] ─┘ -> Bilingual Abstract + Keywords (parallel)

Phase 6: PEER REVIEW -> [peer_reviewer] -> Review Report (max 2 revision loops)

Phase 7: FORMAT -> [formatter] -> Final Output Package

See

references/workflow_phase_details.md

for detailed per-phase agent behavior and output descriptions.

Checkpoint Rules

⚠️

IRON RULE

User must confirm Paper Configuration Record before proceeding to Phase 1

Phase 2 -> 3

User must approve outline (can request restructuring)

⚠️

IRON RULE

Max 2 revision loops; unresolved items -> "Acknowledged Limitations" Peer Review Critical-severity issues block progression to Phase 7 User can skip Phase 1 (literature) if providing own sources Operational Modes (10 Modes) See references/mode_selection_guide.md for details. Mode Trigger Agents Output full "Write a paper" All 9 (+ 11 if quantitative) Complete paper draft (with figures if applicable) outline-only "Paper outline" 1->2->3 Detailed outline + evidence map revision "Revise paper" 8->5->6 Revised draft with tracked changes (uses templates/revision_tracking_template.md ) abstract-only "Write abstract" 1->7 Bilingual abstract + keywords lit-review "Literature review" 1->2 Annotated bibliography + synthesis format-convert "Convert to LaTeX" / "Convert citations to [format]" 9 only Formatted document; includes citation format conversion (APA 7 / Chicago / MLA / IEEE / Vancouver) citation-check "Check citations" 6 only Citation error report plan "guide my paper" / "help me plan my paper" 1->10->3->4 Chapter Plan + INSIGHT Collection revision-coach "parse reviews" / "revision roadmap" / "I got reviewer comments" 12 only Revision Roadmap + optional Tracking Template + Response Letter Skeleton disclosure (v3.2) "AI disclosure for Nature" / "generate AI usage statement" 9 only Venue-specific AI-usage disclosure paragraph(s) + placement instructions Quick Mode Selection Guide Your Situation Recommended Mode Spectrum Starting from scratch with a clear RQ full balanced Need help planning before writing plan originality Just need an outline outline-only balanced Have a draft, received review feedback revision fidelity Have unstructured reviewer comments revision-coach balanced Just need an abstract abstract-only fidelity Need to check/fix citations citation-check fidelity Need to convert format (LaTeX, DOCX) or citation style format-convert fidelity Want a systematic literature review paper lit-review fidelity Need a venue-specific AI-usage disclosure statement for submission disclosure fidelity Spectrum (v3.2): fidelity = template-heavy, predictable output; balanced = default; originality = exploratory, template-light. See shared/mode_spectrum.md for the full cross-skill spectrum table. Not sure? Start with plan — it will guide you step by step. disclosure is a finishing step — run it after the paper is drafted, targeting the venue you plan to submit to. Mode Selection Logic See references/mode_selection_guide.md for trigger-to-mode mappings and the full selection flowchart. Plan Mode: Chapter-by-Chapter Guided Planning Socratic mode that guides users through paper planning one chapter at a time. Builds a complete Paper Blueprint through structured dialogue. See references/plan_mode_protocol.md for the full chapter-by-chapter dialogue flow and Paper Blueprint structure. Handoff Protocol: deep-research -> academic-paper intake_agent automatically detects deep-research materials (RQ Brief / Bibliography / Synthesis / INSIGHT Collection) and skips redundant steps. See deep-research/SKILL.md Handoff Protocol for the complete handoff material format. Failure Paths See references/failure_paths.md for details. Quick reference: Failure Scenario Handling Strategy Insufficient research foundation Recommend running deep-research first Wrong paper structure selected Return to Phase 2, suggest alternative structure Word count significantly over/under target Identify problematic chapters, suggest trimming/expansion Citation format entirely wrong Re-run the entire citation phase Peer review rejection Analyze rejection reasons, suggest major revision or restructuring Plan mode not converging Suggest switching to outline-only mode Incomplete handoff materials List missing items, suggest supplementing or re-running User abandons midway Save completed Chapter Plan Full Academic Pipeline See academic-pipeline/SKILL.md for the complete workflow. Phase 0: Configuration Interview See agents/intake_agent.md for the complete field definitions of the Phase 0 configuration interview. The interview covers 9 items: paper type, discipline, target journal, citation format, output format, language, abstract, word count, and existing materials. Outputs a Paper Configuration Record, awaiting user confirmation. File Structure Agent definitions : agents/{agent_name}.md — one file per agent (12 total, matching Agent Team table above). References (19 files in references/ ): Citation: apa7_extended_guide , apa7_chinese_citation_guide , citation_format_switcher Writing: academic_writing_style , writing_quality_check , writing_judgment_framework Structure: paper_structure_patterns (6 types), abstract_writing_guide Domain: hei_domain_glossary (bilingual), journal_submission_guide , latex_template_reference Process: failure_paths (12 scenarios), mode_selection_guide (10 modes), plan_mode_protocol , workflow_phase_details Ethics: credit_authorship_guide (CRediT 14 roles), funding_statement_guide , statistical_visualization_standards Disclosure (v3.2): disclosure_mode_protocol (venue-specific AI-usage statement generation), venue_disclosure_policies (v1 database: ICLR, NeurIPS, Nature, Science, ACL, EMNLP) Also: deep-research/references/apa7_style_guide.md (base reference, extended here) Templates (11 files in templates/ ): imrad , literature_review , case_study , theoretical_paper , policy_brief , conference_paper , latex_article_template.tex , bilingual_abstract , credit_statement , funding_statement , revision_tracking (4 status types). Examples (5 files in examples/ ): imrad_hei_example , literature_review_example , plan_mode_guided_writing , chinese_paper_example , revision_mode_example . Anti-Patterns Explicit prohibitions to prevent common failure modes:

Anti-Pattern

Why It Fails

Correct Behavior

1

AI-typical overused terms

"delve into", "crucial", "it is important to note" = instant AI detection

Use discipline-specific vocabulary; see

references/writing_quality_check.md

2

Em dash abuse

More than 2 em dashes per page signals AI writing

Use parentheses, commas, or restructure the sentence

3

Throat-clearing openers

"In this section, we will discuss..." adds no information

Start with the claim or finding directly

4

Uniform paragraph lengths

Every paragraph is 4-5 sentences = monotonous AI rhythm

Vary paragraph length naturally (2-8 sentences)

5

⚠️ IRON RULE: Fabricated citations

Inventing plausible-sounding references that don't exist

Every citation must be verified via DOI or WebSearch; see

academic-pipeline/agents/integrity_verification_agent.md

6

Sycophantic revision

Accepting all reviewer feedback without critical evaluation

Use REVIEWER_DISAGREE status when reviewer is wrong; justify with evidence

7

Scope creep during revision

Adding unrequested sections/analyses to "improve" the paper

Revision addresses reviewer concerns only; new content requires explicit user approval

8

Ignoring failure paths

Continuing despite desk-reject signals or fatal methodology flaws

Check

references/failure_paths.md

; invoke F11 Desk-Reject Recovery when triggered

Quality Standards

Writing Quality

Every claim must have a citation

or be supported by the paper's own data

Zero citation orphans

— in-text citations <-> reference list must perfectly match

Consistent register

— academic tone appropriate for the discipline

Logical flow

— clear transitions between paragraphs and sections

Word count compliance

— within +/-10% of target

Bilingual Abstract Quality

Independent writing

— zh-TW and EN abstracts are independently composed, NOT mechanical translations

Structural alignment

— both abstracts cover the same key points in the same order

Keywords

— 5-7 per language, reflecting the paper's core concepts

Word count

— EN: 150-300 words; zh-TW: 300-500 characters

Citation Quality

Format compliance

— 100% adherence to selected citation style

⚠️ IRON RULE:

DOI inclusion

— every source with a DOI must include it; every citation must be verified via DOI or WebSearch

Currency

— flag sources older than 10 years (unless seminal works)

Self-citation ratio

— flag if >15%

Peer Review

Five dimensions

— Originality (20%), Methodological Rigor (25%), Evidence Sufficiency (25%), Argument Coherence (15%), Writing Quality (15%)

Actionable feedback

— every criticism must include a specific suggestion

Max 2 revision rounds

— unresolved items become Acknowledged Limitations

Mandatory Inclusions

⚠️

IRON RULE

Every paper MUST include: Data Availability Statement, Ethics Declaration, Author Contributions (CRediT), Conflict of Interest Statement, Funding Acknowledgment. 17. AI disclosure statement — every paper must include a statement on AI tool usage 18. Limitations section — explicitly discuss study limitations 19. Ethics statement — when applicable (human subjects, sensitive data) Output Language Follows the user's language. Academic terminology is kept in English. Bilingual abstracts are always provided regardless of the main text language. Integration with Other Skills academic-paper + tw-hei-intelligence -> Evidence-based HEI paper with real MOE data academic-paper + deep-research -> Deep research phase -> paper writing phase (auto-handoff) academic-paper + report-to-website -> Interactive web version of the paper academic-paper + notebooklm-slides-generator -> Presentation slides from paper academic-paper + academic-paper-reviewer -> Peer review -> revision loop Version Info Item Content Skill Version 3.0.2 Last Updated 2026-04-15 Maintainer Cheng-I Wu Dependent Skills deep-research v1.0+ (upstream), academic-paper-reviewer v1.0+ (downstream) Version History See references/changelog.md for full version history.