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FreshAirTonight / af2complex

Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
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help setting the env for alphafold #14

Open outlierd29 opened 1 year ago

outlierd29 commented 1 year ago

I want to run the script to create my features from alphafold (https://github.com/FreshAirTonight/af2complex/blob/main/example/run_fea_gen.sh), but i am not sure how to set up my environment for this. Should downloading all the dbs would be enough? is there a more accesible way to create features (maybe outside of this repository)

FreshAirTonight commented 1 year ago

You need all dbs plus all third party tools for sequence alignments. This Dockerfile provides all tools you need to install. Just do it step by step if you are not building a docker container.

Note that you do not need to apply the patches listed in the Dockerfile as they have been applied in our modified source code.