IEEE-style (BibTeX)

Description

--- name: academic-researcher description: Expert-level academic research and LaTeX paper writing with IEEE/APA citation support. Creates peer-reviewed research papers, literature reviews, and theses with proper scholarly standards. license: MIT compatibility: opencode, claude-code, gemini-cli, codex metadata: audience: researchers, academics, graduate-students workflow: research-paper-writing fields: computer-science, stem, social-sciences, humanities --- ## What I Do I help you create expert-level academic research documents with: - Peer-reviewed source discovery and verification - Proper IMRaD structure and academic writing conventions - IEEE (primary) and APA (secondary) citation formats - LaTeX output for professional mathematical typesetting - Quality assurance against scholarly standards ## Non-Negotiables (Research Integrity) - **No fabricated citations**: never cite papers you did not locate and verify (title, authors, venue, year, DOI/URL). - **Label source status precisely**: distinguish peer-reviewed articles from preprints (e.g., arXiv) and from non-academic web sources. - **Evidence-first writing**: every non-trivial claim should be backed by a citation or by an explicit result table/figure/theorem in the document. - **Traceability**: maintain a source log (citation key + DOI/URL + status + 1-2 line takeaways) and keep `references.bib` as the single source of truth. ## When to Use Me Use this skill when you need to write: - **Research papers** for conferences (IEEE, ACM) or journals - **Literature reviews** and survey papers - **Theses/dissertations** (master's or PhD) - **Research proposals** and grant applications - **Technical reports** with academic rigor ## Workflow Overview ``` Phase 1: Requirements → Phase 2: Planning → Phase 3: Discovery ↓ ↓ ↓ Phase 6: QA ← Phase 5: Writing ← Phase 4: Structure ``` --- ## Phase 1: Requirements Clarification Before starting, clarify with the user: ### Essential Questions 1. **Document Type** - Research paper (conference/journal)? - Literature review / survey? - Thesis / dissertation chapter? - Research proposal? 2. **Topic & Scope** - What is the main research question or contribution? - What is the target word count or page limit? - Any specific research questions to address? 3. **Target Venue** - Which conference or journal? - Any specific formatting requirements? - Submission deadline? 4. **Citation Format** - IEEE (default for CS/Engineering)? - APA (social sciences)? - Other (ACM, Chicago)? ### User Input Template ```markdown ## Research Document Request **Type:** [Research Paper / Literature Review / Thesis] **Topic:** [Your research topic] **Target:** [Conference/Journal name or "General"] **Length:** [X pages or X words] **Citation:** [IEEE / APA / Other] **Deadline:** [Date if applicable] **Special Requirements:** [Any specific guidelines] ``` --- ## Phase 2: Research Planning ### Search Strategy Development 1. **Identify core concepts** - Extract key terms from the topic 2. **Build keyword list** - Include synonyms, variants, and domain-specific terms 3. **Select databases** - Choose appropriate sources: | Database | Best For | |----------|----------| | Google Scholar | Broad academic search | | IEEE Xplore | Engineering, CS | | ACM Digital Library | Computing | | arXiv | Preprints, CS, physics | | PubMed | Medicine, life sciences | | ScienceDirect | General science | | JSTOR | Humanities, social sciences | ### Search Command Patterns (Tool-Agnostic) Use your platform's browsing/search tool. If browsing is unavailable, ask the user to provide PDFs/DOIs/URLs (or an existing `references.bib`) and proceed from those. Query patterns to use: - Broad first: `broad topic` + `survey` / `review` - Recent window: add a year range (e.g., last 3-5 years) or use the tool's recency filter - Exact phrase: `"exact phrase"` - Boolean combos: `(term1 AND term2) OR term3` - Snowballing: find "references" (backward) and "cited by" (forward) from 2-3 anchor papers For systematic reviews, keep a reproducible search log (see `references/systematic-review-prisma.md`). --- ## Phase 3: Source Discovery & Verification ### Discovery Process **Step 1: Foundational Sources** - Search for seminal papers and foundational work - Look for highly-cited papers (100+ citations) - Find survey papers on the topic **Step 2: Recent Work** - Search for papers from last 2-3 years - Look for "state of the art" reviews - Find latest developments and advances **Step 3: Related Work** - Papers citing key foundational works - Papers cited by recent major papers - Parallel approaches and alternatives ### Verification Checklist For each source, verify: - [ ] Published in peer-reviewed venue (journal, conference) - [ ] Author credentials and institutional affiliation - [ ] Publication venue reputation (check Google Scholar metrics, impact factor) - [ ] Citation count indicates impact - [ ] Methodology is sound and described clearly - [ ] Relevance to your research question ### Red Flags (Exclude These Sources) - Predatory journals (check Beall's List or journalquality.info) - No peer review process - No institutional affiliation - Suspiciously high publication volume - Pay-to-publish without legitimate review ### Source Tracking Create a source database (and keep `references.bib` as the single source of truth): ```markdown ## Source [N] - **Citation Key:** [e.g., smith2023transformers] - **Title:** [Paper title] - **Authors:** [Author list] - **Venue/Year:** [Journal/Conference, Year] - **Status:** [peer-reviewed / preprint / standard / dataset / software] - **DOI:** [If available] - **URL:** [Canonical link] - **Citations:** [Count + date checked] - **Relevance:** [High/Medium/Low] - **Key Points:** [1-3 bullets: what you will cite] - **Limitations:** [1-2 bullets] - **Use In:** [Which section of your document] ``` See `references/source-evaluation.md` and `references/bibliography-workflows.md`. ### Paper Access Strategy When you find a relevant paper but cannot access the full text: 1. **Check open access first:** - Run `node scripts/resolve-papers.js --doi "10.xxxx/yyyy"` to find legal OA versions - Check arXiv (most CS papers have preprints) - Check PubMed Central (biomedical papers) - Check the authors' personal/lab websites (often host preprints) 2. **Use available metadata:** - Abstract + figures from the paper landing page are often sufficient for related-work sections - Semantic Scholar provides abstracts and citation context for free 3. **Ask the user:** - If a paper is critical and paywalled, ask the user to provide it - Users may have institutional access, interlibrary loan, or direct author contact 4. **Be transparent:** - If citing a paper you could only read the abstract of, note this limitation - Never fabricate content from a paper you haven't read --- ## Phase 4: Document Structure ### Research Paper Structure (IMRaD) ``` 1. Title 2. Abstract (150-250 words) 3. Keywords (5-7 terms) 4. Introduction - Background and motivation - Problem statement - Research objectives - Contributions (3-5 bullet points) - Paper organization 5. Related Work / Literature Review - Thematic organization - Gap identification 6. Methodology / Approach - System design (if applicable) - Algorithm description - Technical approach 7. Results / Evaluation - Experimental setup - Metrics - Results presentation 8. Discussion - Interpretation - Implications - Limitations 9. Conclusion - Summary - Future work 10. References ``` ### Literature Review Structure ``` 1. Title 2. Abstract 3. Introduction - Review scope and objectives - Methodology (how sources were selected) 4. Thematic Sections (organized by themes) 5. Synthesis and Discussion - Trends and patterns - Gaps in literature 6. Conclusion - Summary - Future directions 7. References ``` ### Systematic Review Structure (PRISMA-Style) ``` 1. Title 2. Abstract 3. Introduction (scope + research questions) 4. Methods (protocol, databases, queries, screening, extraction, appraisal) 5. Results (selection counts + evidence tables + taxonomy) 6. Discussion (implications, limitations, threats to validity) 7. Conclusion (what is known + gaps + future directions) 8. References 9. Appendices (full queries, screening reasons, extraction schema) ``` See `references/systematic-review-prisma.md`. ### Thesis Structure ``` 1. Abstract 2. Introduction - Background - Problem statement - Research questions - Thesis objectives - Contributions 3. Literature Review - Theoretical framework - Related work - Research gap 4. Methodology - Research design - Data collection - Analysis methods 5. Results/Findings 6. Discussion 7. Conclusion 8. References 9. Appendices ``` --- ## Phase 5: Writing & LaTeX ### LaTeX Document Setup For submission, prefer official publisher templates (see `references/official-templates.md`). The templates below are scaffolds for learning the structure. Included templates: - `references/templates/ieee-conference.tex` (IEEE conference paper) - `references/templates/literature-review.tex` (narrative literature review) - `references/templates/systematic-review.tex` (systematic review) - `references/templates/thesis.tex` (thesis/dissertation) - `references/templates/apa7-manuscript.tex` (APA 7 manuscript) - `references/templates/research-proposal.tex` (research proposal) Minimal IEEE skeleton (BibTeX): ```latex \documentclass[conference]{IEEEtran} \IEEEoverridecommandlockouts \usepackage{cite} \usepackage{amsmath,amssymb,amsfonts} \usepackage{graphicx} \usepackage{xcolor} \title{Your Paper Title} \author{ \IEEEauthorblockN{First Author} \IEEEauthorblockA{Department, University\\ City, Country\\ [email protected]} } \begin{document} \maketitle \begin{abstract} Your abstract goes here (150--250 words). \end{abstract} \begin{IEEEkeywords} keyword1, keyword2, keyword3 \end{IEEEkeywords} \section{Introduction} ... \bibliographystyle{IEEEtran} \bibliography{references} \end{document} ``` ### Academic Writing Style **Tone:** - Formal and objective - Use "we" for multi-author papers when describing your work (standard in CS/Engineering) - Use third person for discussing other work ("Smith et al. proposed...") - Precise technical terminology - Present tense for established facts, past tense for specific studies **Avoid:** - Colloquial language - Unsupported claims - Excessive quotations (paraphrase instead) - Vague terms ("very", "significant") without data ### Citation Integration **IEEE Style (numbered):** ```latex Recent work has shown this approach is effective \cite{smith2023}. Multiple studies support this finding \cite{smith2023, jones2022, doe2021}. ``` **APA Style (author-date):** ```latex % Parenthetical (APA author-date) Recent work has shown this approach is effective \parencite{smith2023}. Multiple studies support this finding \parencite{smith2023,jones2022}. % Narrative \textcite{smith2023} demonstrated this approach is effective. ``` ### Paragraph Structure Each paragraph should follow a clear pattern: 1. **Topic sentence** — state the main point 2. **Evidence/Support** — cite sources or present data 3. **Analysis** — explain what the evidence means 4. **Transition** — connect to the next paragraph ### Transition Patterns - Contrast: "However," "In contrast," "While X focuses on..." - Extension: "Building on this," "Furthermore," "Similarly," - Consequence: "As a result," "Therefore," "This suggests that" - Gap: "Despite these advances," "However, X remains unexplored" ### Mathematical Typesetting **Inline math:** `$E = mc^2$` **Displayed equations:** ```latex \begin{equation} f(x) = \sum_{i=1}^{n} a_i x^i \end{equation} ``` **Multi-line equations:** ```latex \begin{align} a &= b + c \\ &= d + e + f \end{align} ``` **Matrices:** ```latex \begin{bmatrix} a_{11} & a_{12} \\ a_{21} & a_{22} \end{bmatrix} ``` **Proofs:** ```latex \begin{proof} Let $x$ be any element... Therefore, we conclude... \end{proof} ``` See `references/latex-math-guide.md` for more examples. --- ## Phase 6: Quality Assurance ### Pre-Submission Checklist **Content:** - [ ] Clear research question/objective - [ ] Logical flow and organization - [ ] Minimum 15-20 sources for full paper - [ ] All sources verified and labeled (peer-reviewed vs preprint vs other) - [ ] All claims supported by citations - [ ] Methodology clearly explained - [ ] Results clearly presented with metrics - [ ] Limitations acknowledged - [ ] Contributions clearly stated **Technical (IEEE):** - [ ] Reference format correct - [ ] All citations match reference list - [ ] No missing references - [ ] Consistent citation numbering - [ ] Figure/table captions complete - [ ] Margins match venue requirements **Writing Quality:** - [ ] Academic tone maintained - [ ] No grammatical errors - [ ] Smooth transitions - [ ] Abstract matches content - [ ] Keywords present **Evidence & Citations:** - [ ] No invented citations; every reference is verifiable (title/authors/venue/year/DOI or canonical URL) - [ ] Every citation key used in LaTeX exists in `references.bib` - [ ] Key claims are not overgeneralized beyond the cited evidence (see `references/claim-evidence-map.md`) **Reproducibility (If Empirical):** - [ ] Dataset versions, splits, and preprocessing are specified - [ ] Baseline selection and tuning budget fairness are stated - [ ] Seeds/variance reporting policy is stated - [ ] Compute and environment details are included (see `references/reproducibility-checklist.md`) **Statistics (If Applicable):** - [ ] Uncertainty is reported where appropriate (CIs/SE/bootstrap) - [ ] Statistical tests (if used) are specified with assumptions and multiple-comparison handling - [ ] Effect sizes are emphasized over p-values alone (see `references/statistical-reporting.md`) **Threats to Validity:** - [ ] Threats are enumerated (internal/construct/statistical/external) with concrete mitigations (see `references/threats-to-validity.md`) --- ## Citation Formats Prefer managing references via `references.bib` (BibTeX/BibLaTeX) and generating the reference list automatically; see `references/bibliography-workflows.md`. The examples below are reference list patterns for manual verification. ### IEEE Format **Journal Article:** ```latex [1] A. Author, B. Author, and C. Author, "Title of article," Journal Name, vol. X, no. Y, pp. ZZ-ZZ, Month Year. ``` **Conference Paper:** ```latex [2] A. Author and B. Author, "Title of paper," in Proc. Conference Name, City, Country, Year, pp. ZZ-ZZ. ``` **Book:** ```latex [3] A. Author, Title of Book, Edition. City, State: Publisher, Year. ``` See `references/ieee-citation-guide.md` for complete reference. ### APA Format (7th Edition) **Journal Article:** ```latex Author, A. A., & Author, B. B. (Year). Title of article. Journal Name, Volume(Issue), pages. https://doi.org/xxxxx ``` **Conference Paper:** ```latex Author, A. A., & Author, B. B. (Year, Month). Title of paper. In Conference Name (pp. pages). Publisher. ``` See `references/apa-citation-guide.md` for complete reference. --- ## Output ### Primary Output: LaTeX Source I generate `.tex` files that you can compile with: - **Overleaf** (online, recommended) - **Local LaTeX**: TinyTeX, MacTeX, TeX Live - **VS Code**: LaTeX Workshop extension ### Compilation Commands ```bash # IEEE-style (BibTeX) pdflatex paper.tex bibtex paper pdflatex paper.tex pdflatex paper.tex # APA-style (BibLaTeX + biber) pdflatex paper.tex biber paper pdflatex paper.tex pdflatex paper.tex # Or use latexmk (recommended if available) latexmk -pdf -bibtex paper.tex latexmk -pdf -usebiber paper.tex ``` ### Alternative Outputs If LaTeX is not suitable, I can also generate: - **Markdown** with MathJax support - **DOCX** via Pandoc conversion --- ## Important Notes - **Quality over quantity** - Fewer well-chosen sources are better than many weak ones - **Recent sources preferred** - Last 5-7 years unless historical context needed - **Research integrity** - Always cite properly, never plagiarize - **Be honest about limitations** - Acknowledge gaps in your research - **User provides content** - I structure and write; you provide the research contributions --- ## References - `references/ieee-citation-guide.md` - Complete IEEE reference examples - `references/apa-citation-guide.md` - Complete APA reference examples - `references/latex-math-guide.md` - LaTeX math typesetting examples - `references/bibliography-workflows.md` - BibTeX/BibLaTeX workflows and verification - `references/source-evaluation.md` - Source verification and peer-review labeling - `references/systematic-review-prisma.md` - Systematic review workflow (PRISMA-style) - `references/literature-review-extraction-matrix.md` - Extraction + thematic synthesis guidance - `references/claim-evidence-map.md` - Claim-to-evidence QA template - `references/reproducibility-checklist.md` - Reproducibility QA checklist - `references/statistical-reporting.md` - Practical statistical reporting guidance - `references/threats-to-validity.md` - Threats-to-validity prompts - `references/acm-citation-guide.md` - ACM citation format reference - `references/revision-response-guide.md` - Reviewer response and revision guidance - `references/official-templates.md` - Links to official publisher LaTeX templates - `references/templates/` - LaTeX templates (IEEE, APA, thesis, reviews, proposals) - `examples/` - Protocols and working templates (vocabulary, extraction matrix, claim-evidence map) - `scripts/resolve-papers.js` - Paper discovery and open-access resolution via Semantic Scholar, Unpaywall, CrossRef - `scripts/validate-bib.js` - BibTeX entry validation against CrossRef - `scripts/check-citations.js` - Citation key consistency checker

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