What is the difference between --conditional_probs_only_backbone and --unconditional_probs_only

dauparas / ProteinMPNN

Code for the ProteinMPNN paper

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What is the difference between --conditional_probs_only_backbone and --unconditional_probs_only #97

Open tsjain opened 4 months ago

tsjain commented 4 months ago

From the command line help, they both give p(s_i given backbone), but the latter option additionally states that the numbers come from the forward pass.

Can you explain what the difference is between the two options?

marinegor commented 1 month ago

@tsjain my guess is that unconditional_probs_only ignores the mask that you provide, as e.g. in example 7.