Integrating experimental feedback improves generative models for biological sequences
Fuente:
arXiv
Guardado en:
| Autores principales: | Calvanese, Francesco, Peinetti, Giovanni, Pavlinova, Polina, Nghe, Philippe, Weigt, Martin |
|---|---|
| Formato: | Preprint |
| Publicado: |
2025
|
| Materias: | |
| Acceso en línea: | |
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