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README.md
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The `nucleotide_transformer_downstream_tasks` dataset features the 18 downstream tasks presented in the [Nucleotide Transformer paper](https://www.biorxiv.org/content/10.1101/2023.01.11.523679v3). They consist of both binary and multi-class classification tasks that aim at providing a consistent genomics benchmark.
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**We note that this is an updated version of this benchmark after the paper has been through peer-review. We highly encourage to move to this version in detriment of the [older version](https://huggingface.co/datasets/InstaDeepAI/nucleotide_transformer_downstream_tasks).**
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Keypoints about the updated datasets:
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## Dataset Description
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The `nucleotide_transformer_downstream_tasks` dataset features the 18 downstream tasks presented in the [Nucleotide Transformer paper](https://www.biorxiv.org/content/10.1101/2023.01.11.523679v3). They consist of both binary and multi-class classification tasks that aim at providing a consistent genomics benchmark.
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**We note that this is an updated version of this benchmark after the paper has been through peer-review. We highly encourage to move to this version in detriment of the [older version](https://huggingface.co/datasets/InstaDeepAI/nucleotide_transformer_downstream_tasks).**
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Keypoints about the updated datasets:
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1. It maintains similar tasks, number of classes and train and test set sizes as the previous benchmark;
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2. All the data is now from human samples and from recent and high-quality datasets (see descriptions of each dataset source below);
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3. Randomly generated negative samples have been replaced by existing chunks of genomes not containing the respective elements;
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4. All datasets have now proper chromosome held-out test sets.
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## Dataset Description
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