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README.md
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num_examples: 27382
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download_size: 2322876358
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dataset_size: 2892669154
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---
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num_examples: 27382
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download_size: 2322876358
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dataset_size: 2892669154
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task_categories:
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- text-generation
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- question-answering
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language:
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- en
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tags:
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- biology
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- pytorch
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- causal-lm
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size_categories:
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- 100K<n<1M
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---
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# Overview
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Cell2Sentence is a novel method for adapting large language models to single-cell transcriptomics.
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We transform single-cell RNA sequencing data into sequences of gene names ordered by expression level, termed "cell sentences".
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This dataset was constructed from the immune tissue dataset in [Domínguez et al.](https://www.science.org/doi/10.1126/science.abl5197),
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and it was used to train the [Pythia-160m model](https://huggingface.co/EleutherAI/pythia-160m) capable of generating complete cells described in our paper.
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Details about the Cell2Sentence transformation and preprocessing pipeline can be found in our paper and GitHub repo linked below.
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GitHub: <https://github.com/vandijklab/cell2sentence-ft>
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Paper: <https://www.biorxiv.org/content/10.1101/2023.09.11.557287v3>
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Model Card: <https://huggingface.co/vandijklab/pythia-160m-c2s>
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