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license: mit
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task_categories:
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- text-generation
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tags:
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- biology
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- genomics
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- long-context
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---
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license: mit
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task_categories:
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- text-generation
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tags:
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- biology
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- genomics
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- long-context
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---
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# Next K-mer Prediction
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## Abouts
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The Next K-mer Prediction task is a zero-shot evaluation method introduced in the **GENERator** paper to assess the quality of pretrained models. It involves inputting a sequence segment into the model and having it predict the next K base pairs. The predicted sequence is then compared to the actual sequence to assess accuracy.
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* **Sequence**: The input sequence has a maximum length of 96k base pairs (bp). You can control the number of input tokens by applying **left** truncation.
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* **Label**: The next 128 bp immediately following the end of the input sequence.
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Note: Prediction time may increase significantly for longer input sequences. It is strongly recommended to begin testing with a smaller number of input tokens to optimize performance.
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## How to use
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```python
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from datasets import load_dataset
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datasets = load_dataset("GenerTeam/next_kmer_prediction")
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```
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## Citation
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```bibtex
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@misc{wu2025generator,
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title={GENERator: A Long-Context Generative Genomic Foundation Model},
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author={Wei Wu and Qiuyi Li and Mingyang Li and Kun Fu and Fuli Feng and Jieping Ye and Hui Xiong and Zheng Wang},
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year={2025},
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eprint={2502.07272},
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archivePrefix={arXiv},
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primaryClass={cs.CL},
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url={https://arxiv.org/abs/2502.07272},
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}
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```
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