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README.md
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pipeline_tag: token-classification
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---
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print(format_model_output(output))
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pipeline_tag: token-classification
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---
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**CodonTransformer** is the ultimate tool for codon optimization, transforming protein sequences into optimized DNA sequences specific for your target organisms. Whether you are a researcher or a practitioner in genetic engineering, CodonTransformer provides a comprehensive suite of features to facilitate your work. By leveraging the Transformer architecture and a user-friendly Jupyter notebook, it reduces the complexity of codon optimization, saving you time and effort.
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## Authors
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Adibvafa Fallahpour<sup>1,2</sup>\*, Vincent Gureghian<sup>3</sup>\*, Guillaume J. Filion<sup>2</sup>‡, Ariel B. Lindner<sup>3</sup>‡, Amir Pandi<sup>3</sup>‡
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<sup>1</sup> Vector Institute for Artificial Intelligence, Toronto ON, Canada
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<sup>2</sup> University of Toronto Scarborough; Department of Biological Science; Scarborough ON, Canada
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<sup>3</sup> Université Paris Cité, INSERM U1284, Center for Research and Interdisciplinarity, F-75006 Paris, France
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\* These authors contributed equally to this work.
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‡ To whom correspondence should be addressed:
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guillaume.filion@utoronto.ca, ariel.lindner@inserm.fr, amir.pandi@cri-paris.org
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<br>
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## Use Case
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organism=organism,
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device=DEVICE,
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tokenizer_object=tokenizer,
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model=model,
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attention_type="original_full",
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)
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print(format_model_output(output))
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