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# ProteinMechanicsDiffusionDesign
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## End-to-end de novo protein generation based on nonlinear mechanical unfolding responses using a protein language diffusion model
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To install and run, just
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Note that, the first run may take time as it includes downloading and installing packages and the trained model.
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---
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license: mit
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tags:
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- biology
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- code
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---
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# ProteinMechanicsDiffusionDesign
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## End-to-end de novo protein generation based on nonlinear mechanical unfolding responses using a protein language diffusion model
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</a>
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To install and run, just click the "open in Colab" badge and run all.
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Note that, the first run may take time as it includes downloading and installing packages and the trained model.
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### Model file structure
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The pretrained model is hosted on this repository with the following files.
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> 1. data_pack.pickle: pickle file with the key properties of the training dataset
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> 2. model_pack.pickle: pickle file with the key properties of the model
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> 3. ForTest_LE_128_From_F1_f5.pk: pickle file with the key properties of the de novo test dataset
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> 4. trainer_save-model_pLDM.pt: file of the pretrained model weight
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> 5. mkdssp: executable file to perform secondary structure classification using DSSP
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### Code repository
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The code package is maintained through the following GitHub repository, [ProteinMechanicsDiffusionDesign]:https://github.com/lamm-mit/ProteinMechanicsDiffusionDesign.
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