Metabolic Study Planner
aiming-lab/AutoResearchClaw
Turns a broad metabolic modelling topic into a concrete, paper-shaped plan with organism, model, perturbations, metrics and figures before any FBA code is written.
Turns a refined research proposal into a claim-to-evidence-to-run-order roadmap instead of a sprawling benchmark wishlist.
$ npx skills add zjYao36/Auto-Research-Refine --skill experiment-plan -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install zjYao36/Auto-Research-Refine experiment-plan --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/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .claude/skills && cp -r skills-src/experiment-plan .claude/skills/experiment-plan && 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 "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .claude/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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/zjYao36/Auto-Research-Refine/tree/main/experiment-planType 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 zjYao36/Auto-Research-Refine --skill experiment-plan -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install zjYao36/Auto-Research-Refine experiment-plan --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .agents/skills && cp -r skills-src/experiment-plan .agents/skills/experiment-plan && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .agents/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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 zjYao36/Auto-Research-Refine --skill experiment-plan -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install zjYao36/Auto-Research-Refine experiment-plan --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/experiment-plan .cursor/skills/experiment-plan && 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 "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .cursor/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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/zjYao36/Auto-Research-Refine.git --path experiment-plan--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 zjYao36/Auto-Research-Refine --skill experiment-plan -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install zjYao36/Auto-Research-Refine experiment-plan --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/experiment-plan .gemini/skills/experiment-plan && 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 "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .gemini/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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 zjYao36/Auto-Research-Refine experiment-planInstalls 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 zjYao36/Auto-Research-Refine --skill experiment-plan -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .github/skills && cp -r skills-src/experiment-plan .github/skills/experiment-plan && 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 "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .github/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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 zjYao36/Auto-Research-Refine --skill experiment-plan -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install zjYao36/Auto-Research-Refine experiment-plan --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/zjYao36/Auto-Research-Refine.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/experiment-plan .opencode/skills/experiment-plan && 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 "experiment-plan" agent skill from https://github.com/zjYao36/Auto-Research-Refine/tree/main/experiment-plan into .opencode/skills/experiment-plan/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "experiment-plan", 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.
experiment-planTurns a refined research proposal into a claim-to-evidence-to-run-order roadmap instead of a sprawling benchmark wishlist.
This skill loads the existing proposal context from prior refinement logs when they exist, or derives the same facts from the user's prompt, extracting the problem anchor, the dominant and any supporting contribution, reviewer concerns, and resource constraints before touching experiments.
It freezes a primary claim, an optional supporting claim, and explicit anti-claims to rule out, such as the gain only coming from more parameters, each paired with the minimum evidence that would convince a strong reviewer, capped at two primary claims, five core experimental blocks, and three baseline families by default, with three random seeds when stochastic variance matters.
6 steps, taken from the step headings in SKILL.md.
Read from SKILL.md and the folder at commit a1f1449. It shows what the files ask for, not the result of running them.
Pre-approves these tools, so the agent can use them without asking each time:
Bash(*)ReadWriteEditGrepGlobWebSearchWebFetchAgentFrom allowed-tools in the SKILL.md frontmatter.
No scripts in the folder and no shell commands in SKILL.md (its code samples are markdown).
From the folder's file list and the shell code blocks in SKILL.md.
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Claim-Driven Experiment Planner loads about 2.3k tokens when it runs. Until then it costs about 99 tokens; SKILL.md has 858 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.
The automated check noted patterns worth knowing about, such as sudo or a known installer.
allowed-tools: Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, AgentAutomated 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); files beside SKILL.md are not scanned.
Without a licence we can't republish the file, so here is its outline and opening line. It has 858 words (~2,263 tokens).
SKILL.md and 1 other file in experiment-plan of zjYao36/Auto-Research-Refine.
Open the folder on GitHubat commit a1f1449
We found 11 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 6 other GitHub owners. This page covers the copy in zjYao36/Auto-Research-Refine, which our catalogue first saw on October 7, 2026.
Claim-Driven Experiment Planner 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 |
|---|---|---|---|---|---|---|
| Claim-Driven Experiment Planner this skillzjYao36/Auto-Research-Refine | 128 | 6 repos | ~2.3k | Automated safety check: Notes | None | |
| Metabolic Study Planneraiming-lab/AutoResearchClaw | 15k | — | ~1.9k | Automated safety check: Pass | MIT | |
| Scientific BrainstormingOleafly/Oleafly | 212 | 2 repos | ~3.5k | Automated safety check: Pass | MIT | |
| Academic GrillExekiel179/psyclaw | 103 | — | ~2k | Automated safety check: Pass | MIT | |
| Denariodavila7/claude-code-templates | 33k | 8 repos | ~1.5k | Automated safety check: Notes | MIT | |
| Hypothesis Formulationaiming-lab/AutoResearchClaw | 15k | — | ~628 | Automated safety check: Pass | MIT |
aiming-lab/AutoResearchClaw
Turns a broad metabolic modelling topic into a concrete, paper-shaped plan with organism, model, perturbations, metrics and figures before any FBA code is written.
Oleafly/Oleafly
Facilitates evidence-aware scientific ideation with independent generation, structured discussion, explicit assumptions, transparent evaluation, adversarial review, and decision logs.
Exekiel179/psyclaw
Stress-test an academic research question, proposal, study design, analysis plan, manuscript claim, review protocol, or AI research project through a one-question-at-a-time interview until its…
davila7/claude-code-templates
Multiagent AI system for scientific research assistance that automates research workflows from data analysis to publication.
aiming-lab/AutoResearchClaw
Guides turning an observation into testable, falsifiable hypotheses with null and alternative statements, competing explanations and predictions tied to experimental design.
liangdabiao/claude-data-analysis-ultra-main
Generates testable research hypotheses and experimental designs.
zjYao36/Auto-Research-Refine
Chains research-refine and experiment-plan to turn a vague research direction into a focused proposal and a claim-driven experiment roadmap.
zjYao36/Auto-Research-Refine
Turns a vague research direction into a focused, problem-anchored method plan through up to five review rounds with a second model.
Categories
Turns a refined research proposal into a claim-to-evidence-to-run-order roadmap instead of a sprawling benchmark wishlist. This skill loads the existing proposal context from prior refinement logs when they exist, or derives the same facts from the user's prompt, extracting the problem anchor, the dominant and any supporting contribution, reviewer concerns, and resource constraints before touching experiments.
Claim-Driven Experiment Planner fits situations like: turning a stable method proposal into a concrete experiment plan; deciding what ablations and baselines a paper actually needs; defending that a contribution isn't just decoration.
Run `npx skills add zjYao36/Auto-Research-Refine --skill experiment-plan -a claude-code`. Or copy the skill folder (experiment-plan in zjYao36/Auto-Research-Refine) into .claude/skills/experiment-plan in your project. Claude Code loads it when a task matches its description.
Run `npx skills add zjYao36/Auto-Research-Refine --skill experiment-plan -a codex`. Or copy the skill folder (experiment-plan in zjYao36/Auto-Research-Refine) into .agents/skills/experiment-plan in your project. Codex loads it when a task matches its description.
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add zjYao36/Auto-Research-Refine --skill experiment-plan -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/experiment-plan, .gemini/skills/experiment-plan, .github/skills/experiment-plan and .opencode/skills/experiment-plan in your project.
SKILL.md names no scripts, command-line tools or credentials: Claim-Driven Experiment Planner is instructions for the agent only. Its frontmatter pre-approves these tools: Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent.
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.
Our automated static check of SKILL.md found notes only (pre-approves every shell command (allowed-tools: bash)), nothing it rates as a warning. It is not a guarantee. Review the folder before installing.
No licence was found for Claim-Driven Experiment Planner or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
About 2.3k tokens (SKILL.md is roughly 9.1k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
Skills that share tags, products or a category with Claim-Driven Experiment Planner: Metabolic Study Planner (aiming-lab/AutoResearchClaw, 15k stars), Scientific Brainstorming (Oleafly/Oleafly, 212 stars), Academic Grill (Exekiel179/psyclaw, 103 stars) and Denario (davila7/claude-code-templates, 33k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
zjYao36 (a GitHub user) maintains it in zjYao36/Auto-Research-Refine, which has 128 GitHub stars. The repository holds 3 skills in this directory. The repository was last updated on March 16, 2026.
Source: zjYao36/Auto-Research-Refine on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.