by-hypothesis-debate

by-hypothesis-debate is a skill for Claude Code from 001TMF/blatant-why. It costs 6 tokens per session (6,542 once invoked), scanned A, original, MIT.

A planning workflow that compares three possible protein-design strategies before computing begins, then selects one using a fixed review process.

In plain words
What is it for?
Choosing between design approaches, comparing antibody or binder formats, handling conflicting research findings, and producing a selected campaign configuration.
Why use it?
It exposes competing assumptions and failure risks before spending substantial GPU time on a new or uncertain target.

Skill for Claude Code

Written for Claude Code: installed under .claude/. Also seen: mentions CLAUDE.md; mentions Claude Code.

Good fit Choosing between design approaches, comparing antibody or binder formats, handling conflicting research findings, and producing a selected campaign configuration.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/001tmf/blatant-why/by-hypothesis-debate
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.

Any agent
npx skills add 001TMF/blatant-why --skill by-hypothesis-debate
Clone the repo
git clone --depth 1 https://github.com/001TMF/blatant-why

Made for: Claude Code.

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 by-hypothesis-debate

README.md
[![agentmods](https://agentmods.dev/badge/skills/001tmf/blatant-why/by-hypothesis-debate/github.svg)](https://agentmods.dev/skills/001tmf/blatant-why/by-hypothesis-debate)
Your own site
<a href="https://agentmods.dev/skills/001tmf/blatant-why/by-hypothesis-debate"><img src="https://agentmods.dev/badge/skills/001tmf/blatant-why/by-hypothesis-debate/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for by-hypothesis-debate

Your own site · 80×15
<a href="https://agentmods.dev/skills/001tmf/blatant-why/by-hypothesis-debate"><img src="https://agentmods.dev/badge/skills/001tmf/blatant-why/by-hypothesis-debate.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 6 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 6,542 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe. Third-party audits
  • NVIDIA SkillSpector warn 7 Sept 2026
SkillSpector: 1 finding, up to medium

These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →

  • medium Excessive Agency · line 433
    Skill enables autonomous high-impact decisions without human-in-the-loop verification. Critical operations (destructive commands, financial transactions, data deletion) should require explicit user confirmation.
    Fix: Add human-in-the-loop confirmation for destructive, irreversible, or high-impact operations. Never auto-execute commands that modify files, send data, or alter system state.
How audits are shown
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 5.1 $0.00006 $0.06542
Opus 5 $0.00003 $0.03271
Sonnet 5 $0.00001 $0.01308
Haiku 4.5 $0.00001 $0.00654

Measured 11d ago against content hash 28788afb464e, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-10, from the pricing page.

Security

Grade A, and why

by-hypothesis-debate 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 11d ago.

The scan reads SKILL.md. This mod also ships 2 executable files (scripts/orchestrate_debate.py, scripts/validate_proposal.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

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.

templates/.claude/skills/by-hypothesis-debate/SKILL.md · 510 lines

How it starts

The opening of the file, as written. The whole thing — 510 lines — stays where its author put it; the contents beside it link to each section on GitHub.

BY Hypothesis-Debate Skill

Picking the wrong design strategy on a novel target wastes a GPU day. This skill forces an explicit, structured debate before any compute is spent: three hypothesis agents propose competing strategies in parallel, then a reflection agent ranks them against a fixed rubric. The winner becomes the campaign config.

The pattern is borrowed from adversarial ML and red-team review — it works because three independently-constrained agents will surface failure modes that a single planner misses, and the reflection step exposes hidden assumptions that would otherwise propagate into the campaign plan.


When to Use This Skill

Use this skill when:

  • Starting a campaign against a novel target (0–1 PDB structures, no SAbDab antibodies, <10 papers)
  • Research findings have CONTRADICTED confidence (sources disagree on epitope, modality, or scaffold)
  • Multiple viable modalities are on the table (VHH vs scFv vs de novo binder) and the user has not pinned one
  • The user explicitly says "compare approaches", "explore options", "which strategy would you pick"
  • Target difficulty is rated novel or exploratory by by-research
  • A previous campaign against the same target failed with hit rate < 5% (this skill helps replan, not retry)

Do NOT use this skill when:

  • Target is well-studied with a clear precedent (e.g., TNF-alpha, PD-L1, HER2) → use by-campaign-manager directly
  • The user has already specified modality, scaffolds, and tier — debating wastes turns
  • Running a preview / feasibility campaign — overhead of 3-agent debate is not worth it for 5–10 designs
  • Iterating on a previously-approved campaign (round 2, 3, … reuse the prior strategy)
  • The campaign is gated on lab submission — debate occurs upstream of /by:approve-lab, not after

Quick Start

Invoke from the orchestrator (main session) after by-research has written research.md and recommended_hotspots.json to the campaign directory:

Read the full file on GitHub · 510 lines

Files

What ships with it

6 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

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. 11d ago First seen · 510 lines · 6 tokens per session scan A 28788afb464e

Subscribe to this mod's changes

by-hypothesis-debate is a skill published in the GitHub repository 001TMF/blatant-why (114 stars, last pushed 25d ago), licensed MIT. It adds 6 tokens to every session and 6,542 once invoked, about $0.0000 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 2026-08-30.