Academic Paper
brycewang-stanford/Auto-Empirical-Research-Skills
Academic paper writing skill with 12-agent pipeline. An agent skill from brycewang-stanford/Auto-Empirical-Research-Skills.
Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content.
Install Academic Highlight Generator
$ npx skills add aipoch/medical-research-skills --skill academic-highlight-generator -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install aipoch/medical-research-skills academic-highlight-generator --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/aipoch/medical-research-skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .claude/skills/academic-highlight-generator && 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 "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .claude/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generatorType 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 aipoch/medical-research-skills --skill academic-highlight-generator -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install aipoch/medical-research-skills academic-highlight-generator --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .agents/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .agents/skills/academic-highlight-generator && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .agents/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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 aipoch/medical-research-skills --skill academic-highlight-generator -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install aipoch/medical-research-skills academic-highlight-generator --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .cursor/skills/academic-highlight-generator && 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 "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .cursor/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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/aipoch/medical-research-skills.git --path 'scientific-skills/Academic Writing/academic-highlight-generator'--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 aipoch/medical-research-skills --skill academic-highlight-generator -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install aipoch/medical-research-skills academic-highlight-generator --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .gemini/skills/academic-highlight-generator && 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 "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .gemini/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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 aipoch/medical-research-skills academic-highlight-generatorInstalls 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 aipoch/medical-research-skills --skill academic-highlight-generator -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .github/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .github/skills/academic-highlight-generator && 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 "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .github/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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 aipoch/medical-research-skills --skill academic-highlight-generator -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install aipoch/medical-research-skills academic-highlight-generator --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/'scientific-skills/Academic Writing/academic-highlight-generator' .opencode/skills/academic-highlight-generator && 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 "academic-highlight-generator" agent skill from https://github.com/aipoch/medical-research-skills/tree/main/scientific-skills/Academic%20Writing/academic-highlight-generator into .opencode/skills/academic-highlight-generator/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "academic-highlight-generator", 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.
Facts
- Skill name
academic-highlight-generator- GitHub stars
- 2k
- Token cost
- ~1.5k tokens
- SKILL.md length
- 687 words
- Files
- 4 (incl. scripts, references)
- Skills in repo
- 578
- Repo updated
- First seen
- Licence
- MIT
At a glance
Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content.
- Works in 5 steps: Validate source sufficiency → Extract text if needed → Detect article type → …
- A user needs 3-5 concise
- SKILL.md covers When to Use, When Not to Use, Required Inputs and Output Contract, plus 5 more sections
- Runs Python scripts from its folder; calls python
What it does
Academic Highlight Generator is an agent skill from aipoch/medical-research-skills. Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content. Use when a user needs 3-5 concise, evidence-grounded highlight bullets for a research paper, review, meta-analysis, case report, or bioinformatics manuscript.
Its SKILL.md is about 1.5k tokens, which your agent loads only when the skill is triggered. The skill folder holds 5 other files, including scripts and reference files (for example `academic-highlight-generator_audit_result_v1.json`, `references/prompts.md` and `scripts/extract_text.py`).
It sits in Documents & Office, covering Word documents, Bioinformatics and Scientific writing. It works with Microsoft Word. The repository describes itself as: Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing. The licence is MIT.
When your agent uses it
- A user needs 3-5 concise
- Evidence-grounded highlight bullets for a research paper
- Bioinformatics manuscript
Example prompts
- “Use the academic-highlight-generator skill to generate submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content”
- “/academic-highlight-generator”
Requirements
- Python 3
Workflow steps
5 steps, taken from the step headings in SKILL.md.
What it can do on your machine
Read from SKILL.md and the folder at commit 686e09d. It shows what the files ask for, not the result of running them.
Tool permissions
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.
Runs code
Ships 1 file in scripts/ (Python), which the agent can run.
Shell commands in SKILL.md call:
python
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Academic Highlight Generator loads about 1.5k tokens when it runs, and up to ~2.5k if it reads all its reference files. Until then it costs about 74 tokens; SKILL.md has 687 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.
Safety
Auto-check passed
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); the scripts in this folder are not scanned.
SKILL.md
The full file from aipoch/medical-research-skills at commit 686e09d, republished under its MIT licence (© aipoch). 687 words, ~1,505 tokens.
Download SKILL.mdSave it as
.claude/skills/academic-highlight-generator/SKILL.md (or your agent's skills folder). This skill also uses 3 other files; get the full folder from GitHub.- name
- academic-highlight-generator
- description
- Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content. Use when a user needs 3-5 concise, evidence-grounded highlight bullets for a research paper, review, meta-analysis, case report, or bioinformatics manuscript.
- license
- MIT
- author
- AIPOCH
Academic Highlight Generator
Generate journal-ready Highlights that can be pasted directly into a submission system. This skill is for academic writing output, not for inventing missing results.
When to Use
- The user wants a
Highlightssection for a manuscript submission. - The source is an English manuscript, abstract, results summary, or extracted full text.
- The paper falls into one of these types: Original Research, Meta-analysis, Review, Case Report, Bioinformatics, Bibliometrics, or Technical Note.
- The user needs a deterministic, concise output with strict bullet-count and length limits.
When Not to Use
- The user asks you to fabricate results, novelty claims, study counts, effect sizes, or conclusions that are not in the source.
- The source text is too short to identify study type or key findings reliably.
- The document is a perspective, commentary, editorial, or otherwise unsuitable for formal submission highlights.
- The user provides a binary
.docfile. This package supports.txt,.pdf, and.docx; convert.docbefore continuing.
Required Inputs
Provide one of the following:
- Plain manuscript text, abstract, or structured study summary.
- A supported source file path for
scripts/extract_text.py:.txt,.pdf, or.docx.
Recommended metadata if available:
- Manuscript type or target journal.
- Core method, main findings, and significance sentence.
- Any wording constraints such as British/American spelling.
Output Contract
Always return:
Highlights
- <bullet 1>
- <bullet 2>
- <bullet 3>
[- <bullet 4>]
[- <bullet 5>]Hard requirements:
- Exactly
3-5bullets. - English bullets only unless the user explicitly requests Chinese.
- Maximum
85characters per English bullet. - Objective third-person tone.
- No first person (
we,our). - No undefined abbreviations, citation markers, or figure/table references.
- Every bullet must be grounded in source material.
Supported Execution Paths
Path A: Source text already provided
Use the provided text directly. This is the preferred path for speed and determinism.
Path B: Source file needs extraction
Use:
python scripts/extract_text.py <file_path>Supported formats:
.txt.pdf.docx
Unsupported format:
.doc-> ask the user to convert to.docxor.pdffirst.
Workflow
1. Validate source sufficiency
Before writing anything, confirm the source contains enough signal to identify:
- study type
- method or evidence base
- main finding or conclusion
If not, stop and use the refusal template in ## Fallback and Refusal Contract.
2. Extract text if needed
If the user provided a file instead of text, run:
python scripts/extract_text.py <file_path>If extraction fails:
- report the exact failure,
- preserve the original file path in the message,
- do not invent content from the missing file.
3. Detect article type
Use references/prompts.md to classify the manuscript into one of:
- Original Research
- Meta-analysis
- Review
- Case Report / Case Series
- Bioinformatics Study
- Perspective / Commentary
- Education / Policy Research
- Bibliometric Analysis
- Short Communication / Technical Note
- Other / Unclear
Show full SKILL.md (271 more words)Show less
4. Generate draft highlights
Select the matching generation prompt from references/prompts.md.
Coverage priorities by type:
- Original Research: method, main result, mechanism/utility, significance
- Meta-analysis / Review: evidence base, synthesis method, conclusion, gap/future direction
- Case Report: case feature, diagnostic or treatment learning point, follow-up significance
- Bioinformatics: data source, analytic method, marker/pathway/model, biological relevance
- Bibliometrics: database, time span, tools, hotspots/trends, collaboration pattern
- Technical Note: method/device/process optimization, efficiency or usability gain
5. Self-critique and refine
Use the critique and refinement prompts in references/prompts.md.
The final output must satisfy all of these checks:
3-5bullets- no bullet exceeds the limit
- the bullets are not copied verbatim from the abstract
- the set covers method + finding + value at least once
- no fabricated numbers or study claims
Fallback and Refusal Contract
If the source is unsuitable or insufficient, respond with this structure:
Cannot generate submission-ready Highlights yet.
Reason: <insufficient source / unsupported article type / unsupported file format>
Detected type: <type or Unknown>
Minimum additional input needed:
- <item 1>
- <item 2>Use this refusal contract when:
- the article type is
Other / Unclear, - the text is too short to ground claims,
- the user asks for invention rather than extraction,
- the file format is unsupported.
Deterministic Rules
- Keep the same output header every time:
Highlights. - Do not switch between sentence fragments and full sentences in one output.
- Prefer one factual claim per bullet.
- If a key value is unavailable, omit that value instead of guessing it.
- If the source supports only three safe bullets, output three rather than padding to five.
Quality Checklist
Before returning the final answer, verify:
- Study type and bullet focus are aligned.
- No unsupported causal overstatement appears.
- No clinical recommendation is implied unless the source itself states one cautiously.
- Each bullet is independently readable.
- The final output can be pasted into a journal submission form without reformatting.
© aipoch, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
Files
SKILL.md and 3 other files (scripts, references) in scientific-skills/Academic Writing/academic-highlight-generator of aipoch/medical-research-skills.
- SKILL.md
- academic-highlight-generator_audit_result_v1.json
- references/prompts.md
- scripts/extract_text.py
Open the folder on GitHubat commit 686e09d
Compare with similar skills
Academic Highlight Generator 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 |
|---|---|---|---|---|---|---|
| Academic Highlight Generator this skillaipoch/medical-research-skills | 2k | — | ~1.5k | Automated safety check: Pass | MIT | |
| Academic Paperbrycewang-stanford/Auto-Empirical-Research-Skills | 4.5k | — | ~7.3k | Automated safety check: Pass | Custom licence | |
| Biomedical PaperLeoYeAI/openclaw-master-skills | 2.2k | — | ~3.3k | Automated safety check: Pass | MIT | |
| Academic Integrity Rewritelin1111-1/academic-integrity-rewrite | 102 | — | ~1.1k | Automated safety check: Pass | MIT | |
| PRISMA Systematic Review Writerkeemanxp/slr-prisma | 101 | 1 repos | ~7.1k | Automated safety check: Pass | MIT | |
| Formal Modeling Paper Writeryushui2022/MathModel-Skill | 453 | — | ~1.6k | Automated safety check: Pass | MIT |
Similar skills
Biomedical Paper
LeoYeAI/openclaw-master-skills
AI-powered biomedical manuscript generation with docx output.
Academic Integrity Rewrite
lin1111-1/academic-integrity-rewrite
Revise Chinese or English academic writing for lower unnecessary textual overlap while preserving meaning, evidence, numbers, equations, terminology, and citations.
PRISMA Systematic Review Writer
keemanxp/slr-prisma
Guides you through writing a systematic literature review to the PRISMA 2020 checklist, producing a journal-format Word manuscript, a flow diagram and APA 7th references.
Formal Modeling Paper Writer
yushui2022/MathModel-Skill
Plans, drafts, audits, formats and verifies a formal mathematical-modeling paper from an evidence chain, delivering audited Markdown and a Word file with native equations.
Document Converter
wentorai/Research-Claw
Convert Office documents (PPTX, DOCX, XLSX, PDF, HTML, CSV, JSON, XML, images) to Markdown using Microsoft MarkItDown.
More from aipoch/medical-research-skills
All 578 skills in this repoAcademic Poster Generator
aipoch/medical-research-skills
Complete workflow for generating academic research posters from PDF literature; use when you need to extract paper content from PDFs and produce a LaTeX-based poster…
Diagnostic Study Quality Assessment Quadas
aipoch/medical-research-skills
Analyzes clinical diagnostic accuracy studies for bias using the QUADAS-2 tool.
Exploratory Data Analysis
aipoch/medical-research-skills
Perform comprehensive exploratory data analysis on scientific data files across 200+ file formats.
Iso Certification
aipoch/medical-research-skills
A toolkit for preparing ISO 13485:2016 certification documentation for medical device QMS.
Journal Skills
aipoch/medical-research-skills
Recommends target journals for manuscript submission by analyzing the paper topic/abstract and the journal distribution of similar PubMed literature; use when users ask for journal…
Latex Posters
aipoch/medical-research-skills
Creates academic-poster writing packages for LaTeX using beamerposter, tikzposter, or baposter.
Related
Works with
Categories
Questions about Academic Highlight Generator
What does Academic Highlight Generator do?
Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content. Academic Highlight Generator is an agent skill from aipoch/medical-research-skills. Generates submission-ready Elsevier/SCI Highlights from manuscript text or extracted PDF/DOCX/TXT content.
When should I use Academic Highlight Generator?
Academic Highlight Generator fits situations like: A user needs 3-5 concise; evidence-grounded highlight bullets for a research paper; bioinformatics manuscript.
How do I install Academic Highlight Generator in Claude Code?
Run `npx skills add aipoch/medical-research-skills --skill academic-highlight-generator -a claude-code`. Or copy the skill folder (scientific-skills/Academic Writing/academic-highlight-generator in aipoch/medical-research-skills) into .claude/skills/academic-highlight-generator in your project. Claude Code loads it when a task matches its description.
How do I install Academic Highlight Generator in Codex?
Run `npx skills add aipoch/medical-research-skills --skill academic-highlight-generator -a codex`. Or copy the skill folder (scientific-skills/Academic Writing/academic-highlight-generator in aipoch/medical-research-skills) into .agents/skills/academic-highlight-generator in your project. Codex loads it when a task matches its description.
Can I use Academic Highlight Generator in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add aipoch/medical-research-skills --skill academic-highlight-generator -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/academic-highlight-generator, .gemini/skills/academic-highlight-generator, .github/skills/academic-highlight-generator and .opencode/skills/academic-highlight-generator in your project.
What does Academic Highlight Generator need to run?
Going by SKILL.md and its folder, Academic Highlight Generator needs Python for the scripts in its folder and the command-line tools its instructions call (python). Our summary lists: Python 3.
Does Academic Highlight Generator access the network?
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.
Is Academic Highlight Generator safe to install?
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. The check reads SKILL.md only: the scripts in the folder are not scanned, so read them before running anything.
What licence does Academic Highlight Generator use?
Academic Highlight Generator is published under the MIT licence (declared in SKILL.md). It allows redistribution, so the full SKILL.md is shown on this page.
How many tokens does Academic Highlight Generator use?
About 1.5k tokens (SKILL.md is roughly 6k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 969 tokens, read only when the agent opens those files.
What are the alternatives to Academic Highlight Generator?
Skills that share tags, products or a category with Academic Highlight Generator: Academic Paper (brycewang-stanford/Auto-Empirical-Research-Skills, 4.5k stars), Biomedical Paper (LeoYeAI/openclaw-master-skills, 2.2k stars), Academic Integrity Rewrite (lin1111-1/academic-integrity-rewrite, 102 stars) and PRISMA Systematic Review Writer (keemanxp/slr-prisma, 101 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Academic Highlight Generator?
aipoch (a GitHub organization) maintains it in aipoch/medical-research-skills, which has 1,978 GitHub stars. The repository holds 578 skills in this directory. The repository was last updated on September 17, 2026.
Source: aipoch/medical-research-skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.