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The RfDiffusion API runs RfDiffusion (https://github.com/CyrusBiotechnology/rf-diffusion ) on an input template PDB file. RfDiffusion is a method for structure generation useful for protein design challenges.

Running RfDiffusion

RfDiffusion can be run with the following command:

cyrus submit rf-diffusion input-template.pdb --n-rfdiffusion-designs 23 --n-mpnn-designs 3 --rf-diffusion-contigs A1-25/25-25 --mpnn-af2-contigs A1-25/25-25

The job will produce an outputs directory containing the results of the rf-diffusion and MPNN/AF2 runs.

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