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Title: GitHub - lal3lu03/PockNet: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention. · GitHub

Open Graph Title: GitHub - lal3lu03/PockNet: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention.

X Title: GitHub - lal3lu03/PockNet: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention.

Description: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention. - lal3lu03/PockNet

Open Graph Description: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention. - lal3lu03/PockNet

X Description: Transformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention. - lal3lu03/PockNet

Opengraph URL: https://github.com/lal3lu03/PockNet

X: @github

direct link

Domain: github.com

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og:image:altTransformer fusion pipeline for protein binding-site prediction using ESM2 protein embeddings, physicochemical surface descriptors, and neighbourhood-aware attention. - lal3lu03/PockNet
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https://github.com/lal3lu03/PockNet#pocknet---protein-binding-site-prediction
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