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TeamSundar / TransDTI

TransDTI: Transformer-based language models for estimating DTIs and building a drug-recommendation workflow
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AlphaFold2 predictions #4

Open kalifadan opened 9 months ago

kalifadan commented 9 months ago

Hey, Where can I find the embeddings produce by AlphaFold as you wrote in your paper? I want given a protein (amino acid sequence) to be able to get its embedding vector. Thank you, Dan

xinformatics commented 9 months ago

Hey Dan, please see the following GitHub repo:

https://github.com/xinformatics/alphafold

It contains instructions to extract the embeddings from the Alphafold model given the Amino acid sequence as input.

The repo is more than two years old so I am not sure if the code still works with the currently available Alphafold version.

Hope it helps.

Thanks, Shashank