Hypothesis Generation
spacering-net/codeg
Structured hypothesis formulation from observations. An agent skill from spacering-net/codeg.
Qualify a check before it is allowed to clear anything — prove it can detect the failure it is meant to catch.
$ npx skills add pedrohcgs/claude-code-my-workflow --skill vaccinate -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install pedrohcgs/claude-code-my-workflow vaccinate --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/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .claude/skills && cp -r skills-src/.claude/skills/vaccinate .claude/skills/vaccinate && 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 "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .claude/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinateType 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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install pedrohcgs/claude-code-my-workflow vaccinate --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .agents/skills && cp -r skills-src/.claude/skills/vaccinate .agents/skills/vaccinate && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .agents/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install pedrohcgs/claude-code-my-workflow vaccinate --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/.claude/skills/vaccinate .cursor/skills/vaccinate && 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 "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .cursor/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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/pedrohcgs/claude-code-my-workflow.git --path .claude/skills/vaccinate--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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install pedrohcgs/claude-code-my-workflow vaccinate --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/.claude/skills/vaccinate .gemini/skills/vaccinate && 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 "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .gemini/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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 pedrohcgs/claude-code-my-workflow vaccinateInstalls 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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .github/skills && cp -r skills-src/.claude/skills/vaccinate .github/skills/vaccinate && 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 "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .github/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install pedrohcgs/claude-code-my-workflow vaccinate --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/pedrohcgs/claude-code-my-workflow.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/.claude/skills/vaccinate .opencode/skills/vaccinate && 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 "vaccinate" agent skill from https://github.com/pedrohcgs/claude-code-my-workflow/tree/main/.claude/skills/vaccinate into .opencode/skills/vaccinate/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "vaccinate", 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.
vaccinateQualify a check before it is allowed to clear anything — prove it can detect the failure it is meant to catch.
Vaccinate is an agent skill from pedrohcgs/claude-code-my-workflow. Qualify a check before it is allowed to clear anything — prove it can detect the failure it is meant to catch. Seeds known defects into a copy of a real artifact plus a clean control, runs the checker, and reports recall and false-positive rate into a qualification ledger. Use when the user says "does this check work", "qualify the gate", "test my reviewer", "seed defects", "vaccinate", "qualify the checks", "can I trust this review", "does it pass for the right reason", or before relying on any automated check…
Its SKILL.md is about 2.1k tokens, which your agent loads only when the skill is triggered. The skill folder holds 9 other files, including reference files (for example `evals/README.md`, `evals/cases/README.md` and `evals/cases/detects-stale-gate.md`).
It sits in Research & Science. The repository describes itself as: A ready-to-fork Claude Code template for academics using LaTeX/Beamer + R. Multi-agent review, quality gates, adversarial QA, and replication protocols. The licence is MIT.
6 steps, taken from the step headings in SKILL.md.
Read from SKILL.md and the folder at commit ae72617. 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:
ReadWriteBashGlobGrepAgentFrom allowed-tools in the SKILL.md frontmatter.
Shell commands in SKILL.md call:
bashFrom 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.
Vaccinate loads about 2.1k tokens when it runs, and up to ~3.2k if it reads all its reference files. Until then it costs about 161 tokens; SKILL.md has 1,100 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: Read, Write, Bash, Glob, Grep, 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.
The full file from pedrohcgs/claude-code-my-workflow at commit ae72617, republished under its MIT licence (© pedrohcgs). 1,100 words, ~2,123 tokens.
.claude/skills/vaccinate/SKILL.md (or your agent's skills folder). This skill also uses 6 other files; get the full folder from GitHub.Twenty bugs were once planted in a working codebase and the review agents were asked to check it again. They reported everything was fine. Recall: 0/20.
A vaccine is a small, controlled dose of error that strengthens the whole system. This skill administers one.
The rule it enforces: an unqualified check is not weak evidence — it is none.
State the defect class the check is supposed to catch. "Catches problems" is not a class. "Detects a coefficient in the text that no longer matches its table" is.
Work on a copy, never the live artifact. Produce:
references/defect-library.md.The control is not optional. Without it you measure recall and call it accuracy.
Verify each seed actually violates something. A seed that the artifact already permits creates no defect, and the checker correctly reporting "pass" will look like a broken gate. This is the most common way a qualification run produces a false alarm about itself.
Run the check or agent against each variant in a fresh context, one variant per run. It
must not know which variant it has, how many defects exist, or that a qualification is
underway. For an AI reviewer, spawn a fresh-context Agent call (not a conversation fork, which would carry the seeded answer key).
| Metric | Definition |
|---|---|
| Recall | seeded defects correctly identified / seeded defects planted |
| False-positive rate | findings on the clean control that are factually false / total findings on the control |
| Localization | did it name the right location, or just report unease? |
| Baseline delta | recall of a simpler alternative (a grep, a diff, a one-line assertion) |
A finding on the clean control counts as a false positive only when it is factually wrong — not merely unwelcome. A reviewer prompted to find gaps will report some in sound work; that is expected behaviour, not a failure.
The baseline is load-bearing. A five-agent panel that scores no better than grep -n has
not earned its cost.
Append to quality_reports/qualification/LEDGER.md:
| date | target | artifact | defect classes | N | recall | FPR | baseline | verdict |Verdicts: PASS (detects its named class at an agreed threshold) · FAIL (misses it) · BLOCKED (could not be run — say why; do not record as PASS).
/vaccinate check-model-versions.shThe newest model is Opus 4.8 and it is the default. to README.md.
Control: unmodified README.md.bash scripts/check-model-versions.sh; echo $?grep -c "Opus 4.8" README.md also detects — so the gate's
value is its allow-marker logic, not raw detection.PASS.| File | Read when |
|---|---|
references/defect-library.md | choosing what to seed — defect classes by artifact type |
evals/README.md | the complementary question: does the skill produce better output than not having it? |
A second model, more agents, or a longer debate is not presumed to verify better. Before an elaborate procedure earns extra weight, show it outperforms a simpler check on the same prespecified seeded failures and valid cases, reporting both detection and false alarms. Complexity that has not beaten a baseline is cost, not assurance.
When a model grades, triages, or reviews at scale:
Any material change to the model, prompt, rubric, or target population requires fresh human labels and recalibration.
A check qualified against an old interface, schema, or scale may silently stop testing anything. Re-run the seeded-defect proof after material changes to the object under test or to the check itself.
A missing, substituted, or degraded check is missing evidence, not a pass. Verify the run happened (log, exit status, artifact timestamp — not an assumption); that it ran on the current object, not a cached one; that nothing was skipped, filtered, or swallowed into a default; and that the tolerance was fixed before the comparison. A tolerance loosened after a failed comparison converts evidence into decoration. If it must be loosened, record it as an approved divergence with a reason.
verification-ladder.md — rung 0; why this comes before everything/qualify-checks (2026-08-21): same goal — one skill, not twoexternal-oracle-process.md — qualifying an external referee© pedrohcgs, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
SKILL.md and 6 other files (references) in .claude/skills/vaccinate of pedrohcgs/claude-code-my-workflow.
Open the folder on GitHubat commit ae72617
Vaccinate 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 |
|---|---|---|---|---|---|---|
| Vaccinate this skillpedrohcgs/claude-code-my-workflow | 1.7k | — | ~2.1k | Automated safety check: Notes | MIT | |
| 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 |
spacering-net/codeg
Structured hypothesis formulation from observations. An agent skill from spacering-net/codeg.
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.
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.
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.
mvanhorn/last30days-skill
Research what people actually say about any topic in the last 30 days.
spacering-net/codeg
Structured manuscript/grant review with checklist-based evaluation.
pedrohcgs/claude-code-my-workflow
Adversarial 5-7 question challenge to a deck's pedagogical choices — ordering, prerequisites, cognitive load, motivation.
pedrohcgs/claude-code-my-workflow
Compile a Beamer LaTeX slide deck with XeLaTeX (3 passes + bibtex).
pedrohcgs/claude-code-my-workflow
Show current context status and session health. An agent skill from pedrohcgs/claude-code-my-workflow.
pedrohcgs/claude-code-my-workflow
Snapshot the computational environment for a replication package — detects the analysis stack (R / Stata / Python) and emits the right lockfiles (renv.lock + sessionInfo.txt, requirements.txt /…
pedrohcgs/claude-code-my-workflow
Save a structured state snapshot before stopping or handing off.
pedrohcgs/claude-code-my-workflow
Generate a co-author / collaborator handoff brief for a multi-author, multi-machine project — summarizing what changed since the last brief (git delta), the current state of each artifact…
Categories
Qualify a check before it is allowed to clear anything — prove it can detect the failure it is meant to catch. Vaccinate is an agent skill from pedrohcgs/claude-code-my-workflow. Qualify a check before it is allowed to clear anything — prove it can detect the failure it is meant to catch.
Vaccinate fits situations like: the user says does this check work; qualify the gate; test my reviewer; qualify the checks.
Run `npx skills add pedrohcgs/claude-code-my-workflow --skill vaccinate -a claude-code`. Or copy the skill folder (.claude/skills/vaccinate in pedrohcgs/claude-code-my-workflow) into .claude/skills/vaccinate in your project. Claude Code loads it when a task matches its description.
Run `npx skills add pedrohcgs/claude-code-my-workflow --skill vaccinate -a codex`. Or copy the skill folder (.claude/skills/vaccinate in pedrohcgs/claude-code-my-workflow) into .agents/skills/vaccinate 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 pedrohcgs/claude-code-my-workflow --skill vaccinate -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/vaccinate, .gemini/skills/vaccinate, .github/skills/vaccinate and .opencode/skills/vaccinate in your project.
Going by SKILL.md and its folder, Vaccinate needs the command-line tools its instructions call (bash). Its frontmatter pre-approves these tools: Read, Write, Bash, Glob, Grep, 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.
Vaccinate is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
About 2.1k tokens (SKILL.md is roughly 8.5k 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 1.1k tokens, read only when the agent opens those files.
Skills that share tags, products or a category with Vaccinate: 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.
pedrohcgs (a GitHub user) maintains it in pedrohcgs/claude-code-my-workflow, which has 1,655 GitHub stars. The repository holds 59 skills in this directory. The repository was last updated on September 27, 2026.
Source: pedrohcgs/claude-code-my-workflow on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.