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README.md
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## Model description
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## Intended uses & limitations
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### Generate novel sequences for viral capsid proteins
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### Calculate the perplexity of a protein sequence
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```python
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## Training and evaluation data
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## Training procedure
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## Model description
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This model is a GPT2-like model for generating capsid amino acid sequences. It was trained exclusively on capsid aa_seqs of Piccovirales members.
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## Intended uses & limitations
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As a typical GPT model, it can be used to generate new sequences or used to evaluate the perplexity of given sequences.
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### Generate novel sequences for viral capsid proteins
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```python
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from transformers import pipeline
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protgpt2 = pipeline('text-generation', model="avuhong/PiccoviralesGPT")
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sequences = protgpt2("<|endoftext|>", max_length=750, do_sample=True, top_k=950, repetition_penalty=1.2, num_return_sequences=10, eos_token_id=0)
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```
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### Calculate the perplexity of a protein sequence
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```python
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## Training and evaluation data
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Traning script is included in bash file in this repository.
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## Training procedure
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