ipsae

ipsae is a skill for Claude Code, Codex from BioTender-max/awesome-bio-agent-skills. It costs 103 tokens per session (1,416 once invoked), scanned A, original, no licence file.

A method for ranking protein binder designs with ipSAE, a score based on how consistently two interacting proteins align in predicted structures.

In plain words
What is it for?
Use it to rank designs from BindCraft or RFdiffusion, compare predictions from AlphaFold 2, AlphaFold 3, or Boltz, and filter candidates for testing.
Why use it?
Binder design can produce many candidates, and simple scores may not rank them well. This method helps compare candidates before laboratory testing.

Skill for Claude CodeCodex

Which agent this was written for is unclear — body not stored (licence); the path alone says nothing.

Good fit Use it to rank designs from BindCraft or RFdiffusion, compare predictions from AlphaFold 2, AlphaFold 3, or Boltz, and filter candidates for testing.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/biotender-max/awesome-bio-agent-skills/ipsae
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 BioTender-max/awesome-bio-agent-skills --skill ipsae
Clone the repo
git clone --depth 1 https://github.com/BioTender-max/awesome-bio-agent-skills

Made for: Claude Code, Codex.

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 ipsae

README.md
[![agentmods](https://agentmods.dev/badge/skills/biotender-max/awesome-bio-agent-skills/ipsae/github.svg)](https://agentmods.dev/skills/biotender-max/awesome-bio-agent-skills/ipsae)
Your own site
<a href="https://agentmods.dev/skills/biotender-max/awesome-bio-agent-skills/ipsae"><img src="https://agentmods.dev/badge/skills/biotender-max/awesome-bio-agent-skills/ipsae/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 ipsae

Your own site · 80×15
<a href="https://agentmods.dev/skills/biotender-max/awesome-bio-agent-skills/ipsae"><img src="https://agentmods.dev/badge/skills/biotender-max/awesome-bio-agent-skills/ipsae.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 103 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,416 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 1 finding. A grade says what 26 rules found in the file — not that it is safe.
Origin unknown 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 $0.00103 $0.01416
Opus 5 $0.00051 $0.00708
Sonnet 5 $0.00021 $0.00283
Haiku 4.5 $0.00010 $0.00142

Measured 11d ago against content hash 2a03d4af6931, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-10, from the pricing page.

Security

Grade A, and why

ipsae scanned grade A with 1 finding 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.

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.

Runs shell commandslowCapability

Expected in a hook, worth knowing in a rule or an instructions file.

subprocess.run([
skills/adaptyv/ipsae/SKILL.md · 191 lines

The source is not reproduced here

A licence we could not identify

The repository carries a LICENSE file, but it is custom or dual enough that GitHub cannot name it and neither can this catalogue. Unknown terms are not permission, so the body is not copied here. Read the licence at the source and decide for yourself.

Read it on GitHub

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 · 191 lines · 103 tokens per session scan A 2a03d4af6931

Subscribe to this mod's changes

ipsae is a skill published in the GitHub repository BioTender-max/awesome-bio-agent-skills (175 stars, last pushed 2mo ago), with no licence file. It adds 103 tokens to every session and 1,416 once invoked, about $0.0005 per session on Opus 5. A static security scan graded it A with 1 finding (runs shell commands). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

Related

Other skills, from other repositories

ipsae

Binder design ranking using ipSAE (interprotein Score from Aligned Errors). Use this skill when: (1) Ranking binder designs for experimental testing, (2) Filtering BindCraft or RFdiffusion outputs, (3) Comparing AF2/AF3/Boltz predictions, (4) Predicting binding success rates, (5) Need better ranking than ipTM or iPAE.…

zongtingwei/Bioclaw_Skills_Hub · 114 tokens

ipsae

Binder design ranking using ipSAE (interprotein Score from Aligned Errors). Use this skill when: (1) Ranking binder designs for experimental testing, (2) Filtering BindCraft or RFdiffusion outputs, (3) Comparing AF2/AF3/Boltz predictions, (4) Predicting binding success rates, (5) Need better ranking than ipTM or iPAE.…

adaptyvbio/protein-design-skills · 103 tokens

ipsae

Binder design ranking using ipSAE (interprotein Score from Aligned Errors). Use this skill when: (1) Ranking binder designs for experimental testing, (2) Filtering BindCraft or BoltzGen outputs, (3) Comparing AF2/AF3/Boltz predictions, (4) Predicting binding success rates, (5) Need better ranking than ipTM or iPAE.…

BioTender-max/ProteinClaw · 103 tokens

binding-characterization

Guidance for SPR and BLI binding characterization experiments. Use when: (1) Planning binding kinetics experiments, (2) Troubleshooting poor/no binding signal, (3) Interpreting kinetic data artifacts, (4) Choosing between SPR vs BLI platforms.

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