The embedding store now carries 134 keys
Browse files
README.md
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@@ -108,9 +108,8 @@ Two limits worth knowing before feeding it anything:
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- **Every training and test epitope is a 15-mer.** The arms were normalised to 15 residues. Other
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lengths run, since the encoder pads and masks, but they are outside the training distribution.
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- **Coverage is 116 chains**: 98 human HLA class II chains and 18 mouse H2 chains, the ones the four
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arms actually use. The research embedding store carries
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trained to score them.
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## Usage
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- **The embedding store moved after training.** `emb_hla_esmc_small_0430.h5` as published in
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[`daylight-00/prepibind-embeddings`](https://huggingface.co/datasets/daylight-00/prepibind-embeddings)
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received the 2026-09-08 H2 chain-swap correction and differs from what these checkpoints were
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trained on in 3 of its
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`H2-IAg7A`, same shape and different values. The correction is disclosed, not retro-applied. All
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three are mouse H2 chains and all three are in the training data — 0.48 % to 0.66 % of the rows
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of each arm — so **predictions for H2-IAd and H2-IAg7 come from a model fit on the pre-fix
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- **Every training and test epitope is a 15-mer.** The arms were normalised to 15 residues. Other
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| 109 |
lengths run, since the encoder pads and masks, but they are outside the training distribution.
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| 110 |
- **Coverage is 116 chains**: 98 human HLA class II chains and 18 mouse H2 chains, the ones the four
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arms actually use. The research embedding store carries 134 keys; the other 18 are further human
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alleles curated alongside them, and no released model was trained to score them.
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## Usage
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- **The embedding store moved after training.** `emb_hla_esmc_small_0430.h5` as published in
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[`daylight-00/prepibind-embeddings`](https://huggingface.co/datasets/daylight-00/prepibind-embeddings)
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received the 2026-09-08 H2 chain-swap correction and differs from what these checkpoints were
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trained on in 3 of its 134 keys: `H2-IAdA` and `H2-IAdB`, which held each other's arrays, and
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`H2-IAg7A`, same shape and different values. The correction is disclosed, not retro-applied. All
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three are mouse H2 chains and all three are in the training data — 0.48 % to 0.66 % of the rows
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| 170 |
of each arm — so **predictions for H2-IAd and H2-IAg7 come from a model fit on the pre-fix
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