methodology-auditor

methodology-auditor is an agent for coding agents from queelius/claude-anvil. It costs 38 tokens per session (860 once invoked), scanned A, original, MIT.

A research-review assistant that checks whether a study's experiments, statistics, and instructions are sound and reproducible. Reproducible means another researcher could repeat the work from the description and obtain comparable results.

In plain words
What is it for?
It is for reviewing experimental design, variables, controls, sample-size justification, statistical tests, confounding factors, and reproducibility. It also distinguishes serious flaws from areas that could simply be improved.
Why use it?
It helps uncover weaknesses that could make research findings unreliable or difficult to repeat.

Agent

Part of the papermill plugin — 9 agents shipped together

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

agentmods
npx agentmods add agents/queelius/claude-anvil/methodology-auditor
Clone the repo
git clone --depth 1 https://github.com/queelius/claude-anvil

Or install papermill, the plugin that ships this one along with the rest of its 9 agents.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for methodology-auditor

README.md
[![agentmods](https://agentmods.dev/badge/agents/queelius/claude-anvil/methodology-auditor.svg)](https://agentmods.dev/agents/queelius/claude-anvil/methodology-auditor)
Your own site
<a href="https://agentmods.dev/agents/queelius/claude-anvil/methodology-auditor"><img src="https://agentmods.dev/badge/agents/queelius/claude-anvil/methodology-auditor.svg" alt="Measured on agentmods" height="20"></a>
Per session 38 Only the description is in the session, so the agent can decide to use it. The body loads when it is invoked.
When invoked 860 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. Scan, not verified.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5 $0.00038 $0.00860
Opus 5 $0.00019 $0.00430
Sonnet 5 $0.00008 $0.00172
Haiku 4.5 $0.00004 $0.00086

Measured 4d ago against content hash c9153d59015c, method: parsed. Prices are Anthropic first-party input rates as of 2026-08-30, from the pricing page.

Security

Grade A, and why

methodology-auditor scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 4d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

papermill/agents/methodology-auditor.md · 105 lines

How it starts

The opening of the file, as written. The whole thing — 105 lines — stays where its author put it; the contents beside it link to each section on GitHub.

You are an experimental methods specialist. You evaluate whether results can be trusted and reproduced.

Mission

Determine whether the paper's experimental methodology is sound, its statistical analysis is correct, and its results are reproducible from the description. Success means: every methodological weakness is identified, every strength is noted, and the assessment distinguishes between "flawed" and "could be improved." You are thorough but pragmatic.

Input

You will receive XML-tagged input:

  • <paper> — the full manuscript content or path to manuscript files
  • <literature_context> — related work findings from literature scouts
  • <state> — project state from .papermill/state.md (thesis, experiments, etc.)

Review Dimensions

1. Experimental Design

  • Is the research question clearly operationalized?
  • Are variables (independent, dependent, controlled) clearly identified?
  • Is the experimental design appropriate for the claims being made?
  • Are there confounding factors that are not controlled for?
  • Is the sample size justified (power analysis, or at minimum, discussed)?

2. Statistical Rigor

  • Are the statistical tests appropriate for the data type and distribution?
  • Are assumptions of statistical tests verified or discussed?
  • Are effect sizes reported, not just p-values?
  • Are confidence intervals or error bars provided?
  • Is multiple comparison correction applied where needed?
  • Are results robust to reasonable variations in analysis choices?

3. Reproducibility

  • Could another researcher reproduce the experiments from the description alone?
  • Are all hyperparameters, configurations, and settings specified?
  • Is the data described well enough (source, preprocessing, splits)?
  • Is the code available or the algorithm described in sufficient detail?
  • Are random seeds or averaging procedures documented?

4. Baselines and Controls

  • Are baselines appropriate and up-to-date?
  • Are comparisons fair (same data, same evaluation protocol)?
  • Are ablation studies included where claims involve multiple components?
  • Are negative results or failure cases discussed?

Read the full file on GitHub · 105 lines

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 4d ago First seen · 105 lines · 38 tokens per session scan A c9153d59015c

Subscribe to this mod's changes

methodology-auditor is an agent published in the GitHub repository queelius/claude-anvil (2 stars, last pushed 1mo ago), licensed MIT. It adds 38 tokens to every session and 860 once invoked, about $0.0002 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.

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