Hypothesis Generation
spacering-net/codeg
Structured hypothesis formulation from observations. An agent skill from spacering-net/codeg.
Draft and render a meta-analysis manuscript with Quarto using an IMRaD structure and embedded figures/tables.
Install Ma Manuscript Quarto
$ npx skills add htlin222/meta-pipe --skill ma-manuscript-quarto -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install htlin222/meta-pipe ma-manuscript-quarto --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/htlin222/meta-pipe.git skills-src && mkdir -p .claude/skills && cp -r skills-src/ma-manuscript-quarto .claude/skills/ma-manuscript-quarto && 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 "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .claude/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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/htlin222/meta-pipe/tree/main/ma-manuscript-quartoType 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 htlin222/meta-pipe --skill ma-manuscript-quarto -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install htlin222/meta-pipe ma-manuscript-quarto --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/htlin222/meta-pipe.git skills-src && mkdir -p .agents/skills && cp -r skills-src/ma-manuscript-quarto .agents/skills/ma-manuscript-quarto && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .agents/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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 htlin222/meta-pipe --skill ma-manuscript-quarto -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install htlin222/meta-pipe ma-manuscript-quarto --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/htlin222/meta-pipe.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/ma-manuscript-quarto .cursor/skills/ma-manuscript-quarto && 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 "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .cursor/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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/htlin222/meta-pipe.git --path ma-manuscript-quarto--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 htlin222/meta-pipe --skill ma-manuscript-quarto -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install htlin222/meta-pipe ma-manuscript-quarto --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/htlin222/meta-pipe.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/ma-manuscript-quarto .gemini/skills/ma-manuscript-quarto && 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 "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .gemini/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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 htlin222/meta-pipe ma-manuscript-quartoInstalls 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 htlin222/meta-pipe --skill ma-manuscript-quarto -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/htlin222/meta-pipe.git skills-src && mkdir -p .github/skills && cp -r skills-src/ma-manuscript-quarto .github/skills/ma-manuscript-quarto && 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 "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .github/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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 htlin222/meta-pipe --skill ma-manuscript-quarto -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install htlin222/meta-pipe ma-manuscript-quarto --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/htlin222/meta-pipe.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/ma-manuscript-quarto .opencode/skills/ma-manuscript-quarto && 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 "ma-manuscript-quarto" agent skill from https://github.com/htlin222/meta-pipe/tree/main/ma-manuscript-quarto into .opencode/skills/ma-manuscript-quarto/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "ma-manuscript-quarto", 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
ma-manuscript-quarto- GitHub stars
- 139
- Token cost
- ~7.9k tokens
- SKILL.md length
- 3,143 words
- Files
- 30 (incl. scripts, references, assets)
- Skills in repo
- 15
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
Draft and render a meta-analysis manuscript with Quarto using an IMRaD structure and embedded figures/tables.
- Works in 5 steps: Outline & Checklist (MANDATORY before… → Write from Outline → writing rules → …
- Preparing the final paper from analysis outputs
- SKILL.md covers Overview, Inputs, Outputs and Workflow, plus 8 more sections
- Runs Python scripts from its folder; calls bash, make and uv
What it does
Ma Manuscript Quarto is an agent skill from htlin222/meta-pipe. Draft and render a meta-analysis manuscript with Quarto using an IMRaD structure and embedded figures/tables. Use when preparing the final paper from analysis outputs.
Its SKILL.md is about 7.9k tokens, which your agent loads only when the skill is triggered. The skill folder holds 33 other files, including scripts, reference files and assets (for example `assets/quarto/manuscript_outline.md`, `references/academic-writing-style.md` and `references/manuscript-assembly.md`).
It sits in Research & Science. The repository describes itself as: Claude Code-powered end-to-end meta-analysis automation: AI-assisted literature review, screening, extraction, analysis, and manuscript generation for systematic reviews and….
When your agent uses it
- Preparing the final paper from analysis outputs
Example prompts
- “/ma-manuscript-quarto”
Requirements
- Python 3
Workflow steps
5 steps, taken from the step headings in SKILL.md.
- Outline & Checklist (MANDATORY before any writing)
- Write from Outline
- writing rules
- gate (before writing)
- checkpoints (during writing)
What it can do on your machine
Read from SKILL.md and the folder at commit 5c5c3f0. 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, from the files we listed), which the agent can run.
Shell commands in SKILL.md call:
bashmakeuv
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md. Its commands use uv, which can reach the network depending on how they are called.
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
Ma Manuscript Quarto loads about 7.9k tokens when it runs, and up to ~26k if it reads all its reference files. Until then it costs about 47 tokens; SKILL.md has 3,143 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
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 3,143 words (~7,872 tokens).
“Create a Quarto manuscript with standard IMRaD sections and render to PDF and HTML.”
- name
- ma-manuscript-quarto
Files
SKILL.md and 29 other files (scripts, references, assets) in ma-manuscript-quarto of htlin222/meta-pipe.
- SKILL.md
- assets/quarto/00_abstract.qmd
- assets/quarto/01_introduction.qmd
- assets/quarto/02_methods.qmd
- assets/quarto/03_results.qmd
- assets/quarto/04_discussion.qmd
- assets/quarto/index.qmd
- assets/quarto/manuscript_outline.md
- references/academic-writing-style.md
- references/manuscript-assembly.md
- references/manuscript-completion-template.md
- references/quarto-syntax-guide.md
- references/style-ama-guide.md
- references/style-no-ai-casual.md
- references/style-professional-register.md
- references/supplementary-materials-template.md
- scripts/assemble_results.py
- … and 13 more
Open the folder on GitHubat commit 5c5c3f0
Compare with similar skills
Ma Manuscript Quarto 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 |
|---|---|---|---|---|---|---|
| Ma Manuscript Quarto this skillhtlin222/meta-pipe | 139 | — | ~7.9k | Automated safety check: Pass | Custom licence | |
| Hypothesis Generationspacering-net/codeg | 3.9k | 14 repos | ~3.6k | Automated safety check: Notes | MIT | |
| GitHub Deep Researchbytedance/deer-flow | 84k | 4 repos | ~1.3k | Automated safety check: Pass | MIT | |
| Nature Paper CardYuan1z0825/nature-skills | 47k | 2 repos | ~2.1k | Automated safety check: Pass | Apache-2.0 | |
| Content Research Writerweapp-tailwindcss/weapp-tailwindcss | 1.9k | 25 repos | ~3.5k | Automated safety check: Pass | MIT | |
| Last30daysmvanhorn/last30days-skill | 64k | — | ~7.9k | Automated safety check: Notes | MIT |
Similar skills
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.
Nature Paper Card
Yuan1z0825/nature-skills
Builds a structured deep-reading card for one scientific paper, covering methods, how experiments support claims, limitations and research ideas, with a script to prepare the source.
Content Research Writer
weapp-tailwindcss/weapp-tailwindcss
Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section.
Last30days
mvanhorn/last30days-skill
Research what people actually say about any topic in the last 30 days.
Peer Review
spacering-net/codeg
Structured manuscript/grant review with checklist-based evaluation.
More from htlin222/meta-pipe
All 15 skills in this repoMa Data Extraction
htlin222/meta-pipe
Define extraction schema, extract study data from full texts, and store it in a structured database for meta-analysis.
Ma End To End
htlin222/meta-pipe
End-to-end AI-assisted meta-analysis pipeline orchestration from TOPIC.txt to final manuscript and reviewer responses.
Ma Fulltext Management
htlin222/meta-pipe
Collect and manage full-text PDFs for included studies, track provenance, and prepare documents for extraction.
Ma Screening Quality
htlin222/meta-pipe
Perform title and abstract screening, apply inclusion and exclusion criteria, and assess study quality or risk of bias.
Ma Search Bibliography
htlin222/meta-pipe
Conduct literature searches for meta-analysis using Python with uv, query PubMed and other databases, deduplicate results, and store round-based bibliographies with notes.
Ma Meta Analysis
htlin222/meta-pipe
Run statistical meta-analysis in R with renv, generate effect estimates, heterogeneity, and publication bias diagnostics, and export figures and tables.
Related
Categories
Questions about Ma Manuscript Quarto
What does Ma Manuscript Quarto do?
Draft and render a meta-analysis manuscript with Quarto using an IMRaD structure and embedded figures/tables. Ma Manuscript Quarto is an agent skill from htlin222/meta-pipe. Draft and render a meta-analysis manuscript with Quarto using an IMRaD structure and embedded figures/tables.
When should I use Ma Manuscript Quarto?
Ma Manuscript Quarto fits situations like: preparing the final paper from analysis outputs.
How do I install Ma Manuscript Quarto in Claude Code?
Run `npx skills add htlin222/meta-pipe --skill ma-manuscript-quarto -a claude-code`. Or copy the skill folder (ma-manuscript-quarto in htlin222/meta-pipe) into .claude/skills/ma-manuscript-quarto in your project. Claude Code loads it when a task matches its description.
How do I install Ma Manuscript Quarto in Codex?
Run `npx skills add htlin222/meta-pipe --skill ma-manuscript-quarto -a codex`. Or copy the skill folder (ma-manuscript-quarto in htlin222/meta-pipe) into .agents/skills/ma-manuscript-quarto in your project. Codex loads it when a task matches its description.
Can I use Ma Manuscript Quarto 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 htlin222/meta-pipe --skill ma-manuscript-quarto -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/ma-manuscript-quarto, .gemini/skills/ma-manuscript-quarto, .github/skills/ma-manuscript-quarto and .opencode/skills/ma-manuscript-quarto in your project.
What does Ma Manuscript Quarto need to run?
Going by SKILL.md and its folder, Ma Manuscript Quarto needs Python for the scripts in its folder and the command-line tools its instructions call (bash, make and uv). Our summary lists: Python 3.
Does Ma Manuscript Quarto access the network?
SKILL.md contains no URLs. Its commands use uv, which can reach the network depending on how they are called. This is read from the text; nothing was executed.
Is Ma Manuscript Quarto 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 Ma Manuscript Quarto use?
Ma Manuscript Quarto has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
How many tokens does Ma Manuscript Quarto use?
About 7.9k tokens (SKILL.md is roughly 31k 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 18k tokens, read only when the agent opens those files.
What are the alternatives to Ma Manuscript Quarto?
Skills that share tags, products or a category with Ma Manuscript Quarto: Hypothesis Generation (spacering-net/codeg, 3.9k stars), GitHub Deep Research (bytedance/deer-flow, 84k stars), Nature Paper Card (Yuan1z0825/nature-skills, 47k stars) and Content Research Writer (weapp-tailwindcss/weapp-tailwindcss, 1.9k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Ma Manuscript Quarto?
htlin222 (a GitHub user) maintains it in htlin222/meta-pipe, which has 139 GitHub stars. The repository holds 15 skills in this directory. The repository was last updated on September 23, 2026.
Source: htlin222/meta-pipe on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.