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ipsae
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# ipSAE Binder Design Ranking
ipSAE (Interprotein Score from Aligned Errors) — ranking metric for binder designs that outperforms ipTM and iPAE for predicting experimental binding success. Derived from AF2/Boltz/Chai PAE matrices.
## Background
Standard ipTM score has limitations:
- Designed to measure structural confidence, not binding affinity
- Doesn't distinguish between correct but weak vs. incorrect confident predictions
ipSAE extracts the asymmetric aligned error information from the PAE matrix to better predict whether a designed complex will actually bind.
## Installation
```bash